Sample records for yellowstone thermoacidophilic eukaryotic

  1. Biotransformation of arsenic by a Yellowstone thermoacidophilic eukaryotic alga

    PubMed Central

    Qin, Jie; Lehr, Corinne R.; Yuan, Chungang; Le, X. Chris; McDermott, Timothy R.; Rosen, Barry P.

    2009-01-01

    Arsenic is the most common toxic substance in the environment, ranking first on the Superfund list of hazardous substances. It is introduced primarily from geochemical sources and is acted on biologically, creating an arsenic biogeocycle. Geothermal environments are known for their elevated arsenic content and thus provide an excellent setting in which to study microbial redox transformations of arsenic. To date, most studies of microbial communities in geothermal environments have focused on Bacteria and Archaea, with little attention to eukaryotic microorganisms. Here, we show the potential of an extremophilic eukaryotic alga of the order Cyanidiales to influence arsenic cycling at elevated temperatures. Cyanidioschyzon sp. isolate 5508 oxidized arsenite [As(III)] to arsenate [As(V)], reduced As(V) to As(III), and methylated As(III) to form trimethylarsine oxide (TMAO) and dimethylarsenate [DMAs(V)]. Two arsenic methyltransferase genes, CmarsM7 and CmarsM8, were cloned from this organism and demonstrated to confer resistance to As(III) in an arsenite hypersensitive strain of Escherichia coli. The 2 recombinant CmArsMs were purified and shown to transform As(III) into monomethylarsenite, DMAs(V), TMAO, and trimethylarsine gas, with a Topt of 60–70 °C. These studies illustrate the importance of eukaryotic microorganisms to the biogeochemical cycling of arsenic in geothermal systems, offer a molecular explanation for how these algae tolerate arsenic in their environment, and provide the characterization of algal methyltransferases. PMID:19276121

  2. Biotransformation of arsenic by a Yellowstone thermoacidophilic eukaryotic alga.

    PubMed

    Qin, Jie; Lehr, Corinne R; Yuan, Chungang; Le, X Chris; McDermott, Timothy R; Rosen, Barry P

    2009-03-31

    Arsenic is the most common toxic substance in the environment, ranking first on the Superfund list of hazardous substances. It is introduced primarily from geochemical sources and is acted on biologically, creating an arsenic biogeocycle. Geothermal environments are known for their elevated arsenic content and thus provide an excellent setting in which to study microbial redox transformations of arsenic. To date, most studies of microbial communities in geothermal environments have focused on Bacteria and Archaea, with little attention to eukaryotic microorganisms. Here, we show the potential of an extremophilic eukaryotic alga of the order Cyanidiales to influence arsenic cycling at elevated temperatures. Cyanidioschyzon sp. isolate 5508 oxidized arsenite [As(III)] to arsenate [As(V)], reduced As(V) to As(III), and methylated As(III) to form trimethylarsine oxide (TMAO) and dimethylarsenate [DMAs(V)]. Two arsenic methyltransferase genes, CmarsM7 and CmarsM8, were cloned from this organism and demonstrated to confer resistance to As(III) in an arsenite hypersensitive strain of Escherichia coli. The 2 recombinant CmArsMs were purified and shown to transform As(III) into monomethylarsenite, DMAs(V), TMAO, and trimethylarsine gas, with a T(opt) of 60-70 degrees C. These studies illustrate the importance of eukaryotic microorganisms to the biogeochemical cycling of arsenic in geothermal systems, offer a molecular explanation for how these algae tolerate arsenic in their environment, and provide the characterization of algal methyltransferases.

  3. Mechanisms of Mineral Substrate Acquisition in a Thermoacidophile.

    PubMed

    Amenabar, Maximiliano J; Boyd, Eric S

    2018-06-15

    The thermoacidophile Acidianus is widely distributed in Yellowstone National Park hot springs that span large gradients in pH (1.60 to 4.84), temperature (42 to 90°C), and mineralogical composition. To characterize the potential role of flexibility in mineral-dependent energy metabolism in contributing to the widespread ecological distribution of this organism, we characterized the spectrum of minerals capable of supporting metabolism and the mechanisms that it uses to access these minerals. The energy metabolism of Acidianus strain DS80 was supported by elemental sulfur (S 0 ), a variety of iron (hydr)oxides, and arsenic sulfide. Strain DS80 reduced, oxidized, and disproportionated S 0 Cells growing via S 0 reduction and disproportionation did not require direct access to the mineral to reduce it, whereas cells growing via S 0 oxidation did require direct access, observations that are attributable to the role of H 2 S produced by S 0 reduction/disproportionation in solubilizing and increasing the bioavailability of S 0 Cells growing via iron (hydr)oxide reduction did not require access to the mineral, suggesting that the cells reduce Fe(III) that is being leached by the acidic growth medium. Cells growing via oxidation of arsenic sulfide with Fe(III) did not require access to the mineral to grow. The stoichiometry of reactants to products indicates that cells oxidize soluble As(III) released from oxidation of arsenic sulfide by aqueous Fe(III). Taken together, these observations underscore the importance of feedbacks between abiotic and biotic reactions in influencing the bioavailability of mineral substrates and defining ecological niches capable of supporting microbial metabolism. IMPORTANCE Mineral sources of electron donor and acceptor that support microbial metabolism are abundant in the natural environment. However, the spectrum of minerals capable of supporting a given microbial strain and the mechanisms that are used to access these minerals in support of

  4. A ubiquitous thermoacidophilic archaeon from deep-sea hydrothermal vents

    USGS Publications Warehouse

    Reysenbach, A.-L.; Liu, Yajing; Banta, A.B.; Beveridge, T.J.; Kirshtein, J.D.; Schouten, S.; Tivey, M.K.; Von Damm, Karen L.; Voytek, M.A.

    2006-01-01

    Deep-sea hydrothermal vents are important in global biogeochemical cycles, providing biological oases at the sea floor that are supported by the thermal and chemical flux from the Earth's interior. As hot, acidic and reduced hydrothermal fluids mix with cold, alkaline and oxygenated sea water, minerals precipitate to form porous sulphide-sulphate deposits. These structures provide microhabitats for a diversity of prokaryotes that exploit the geochemical and physical gradients in this dynamic ecosystem. It has been proposed that fluid pH in the actively venting sulphide structures is generally low (pH < 4.5), yet no extreme thermoacidophile has been isolated from vent deposits. Culture-independent surveys based on ribosomal RNA genes from deep-sea hydrothermal deposits have identified a widespread euryarchaeotal lineage, DHVE2 (deep-sea hydrothermal vent euryarchaeotic 2). Despite the ubiquity and apparent deep-sea endemism of DHVE2, cultivation of this group has been unsuccessful and thus its metabolism remains a mystery. Here we report the isolation and cultivation of a member of the DHVE2 group, which is an obligate thermoacidophilic sulphur- or iron-reducing heterotroph capable of growing from pH 3.3 to 5.8 and between 55 and 75??C. In addition, we demonstrate that this isolate constitutes up to 15% of the archaeal population, providing evidence that thermoacidophiles may be key players in the sulphur and iron cycling at deep-sea vents. ?? 2006 Nature Publishing Group.

  5. Biogeographic and phylogenetic diversity of thermoacidophilic cyanidiales in Yellowstone National Park, Japan, and New Zealand.

    PubMed

    Toplin, J A; Norris, T B; Lehr, C R; McDermott, T R; Castenholz, R W

    2008-05-01

    Members of the rhodophytan order Cyanidiales are unique among phototrophs in their ability to live in extreme environments that combine low pH levels ( approximately 0.2 to 4.0) and moderately high temperatures of 40 to 56 degrees C. These unicellular algae occur in far-flung volcanic areas throughout the earth. Three genera (Cyanidium, Galdieria, and Cyanidioschyzon) are recognized. The phylogenetic diversity of culture isolates of the Cyanidiales from habitats throughout Yellowstone National Park (YNP), three areas in Japan, and seven regions in New Zealand was examined by using the chloroplast RuBisCO large subunit gene (rbcL) and the 18S rRNA gene. Based on the nucleotide sequences of both genes, the YNP isolates fall into two groups, one with high identity to Galdieria sulphuraria (type II) and another that is by far the most common and extensively distributed Yellowstone type (type IA). The latter is a spherical, walled cell that reproduces by internal divisions, with a subsequent release of smaller daughter cells. This type, nevertheless, shows a 99 to 100% identity to Cyanidioschyzon merolae (type IB), which lacks a wall, divides by "fission"-like cytokinesis into two daughter cells, and has less than 5% of the cell volume of type IA. The evolutionary and taxonomic ramifications of this disparity are discussed. Although the 18S rRNA and rbcL genes did not reveal diversity among the numerous isolates of type IA, chloroplast short sequence repeats did show some variation by location within YNP. In contrast, Japanese and New Zealand strains showed considerable diversity when we examined only the sequences of 18S and rbcL genes. Most exhibited identities closer to Galdieria maxima than to other strains, but these identities were commonly as low as 91 to 93%. Some of these Japanese and New Zealand strains probably represent undescribed species that diverged after long-term geographic isolation.

  6. Atlas of Yellowstone

    USGS Publications Warehouse

    Pierce, Kenneth L.; Marcus, A. W.; Meachan, J. E.; Rodman, A. W.; Steingisser, A. Y.; Allan, Stuart; West, Ross

    2012-01-01

    Established in 1872, Yellowstone National Park was the world’s first national park. In a fitting tribute to this diverse and beautiful region, the Atlas of Yellowstone is a compelling visual guide to this unique national park and its surrounding area. Ranging from art to wolves, from American Indians to the Yellowstone Volcano, and from geysers to population, each page explains something new about the dynamic forces shaping Yellowstone. Equal parts reference and travel guide, the Atlas of Yellowstone is an unsurpassed resource.

  7. Life history migrations of adult Yellowstone Cutthroat Trout in the upper Yellowstone River

    USGS Publications Warehouse

    Ertel, Brian D.; McMahon, Thomas E.; Koel, Todd M.; Gresswell, Robert E.; Burckhardt, Jason

    2017-01-01

    Knowledge of salmonid life history types at the watershed scale is increasingly recognized as a cornerstone for effective management. In this study, we used radiotelemetry to characterize the life history movements of Yellowstone Cutthroat Trout Oncorhynchus clarkii bouvieri in the upper Yellowstone River, an extensive tributary that composes nearly half of the drainage area of Yellowstone Lake. In Yellowstone Lake, Yellowstone Cutthroat Trout have precipitously declined over the past 2 decades primarily due to predation from introduced Lake Trout Salvelinus namaycush. Radio tags were implanted in 152 Yellowstone Cutthroat Trout, and their movements monitored over 3 years. Ninety-six percent of tagged trout exhibited a lacustrine–adfluvial life history, migrating upstream a mean distance of 42.6 km to spawn, spending an average of 24 d in the Yellowstone River before returning to Yellowstone Lake. Once in the lake, complex postspawning movements were observed. Only 4% of radio-tagged trout exhibited a fluvial or fluvial–adfluvial life history. Low prevalence of fluvial and fluvial–adfluvial life histories was unexpected given the large size of the upper river drainage. Study results improve understanding of life history diversity in potamodromous salmonids inhabiting relatively undisturbed watersheds and provide a baseline for monitoring Yellowstone Cutthroat Trout response to management actions in Yellowstone Lake.

  8. In situ gene expression profiling of the thermoacidophilic alga Cyanidioschyzon in relation to visible and ultraviolet irradiance.

    PubMed

    Skorupa, Dana J; Castenholz, Richard W; Mazurie, Aurélien; Carey, Charles; Rosenzweig, Frank; McDermott, Timothy R

    2014-06-01

    Ultraviolet and high-intensity visible radiation generate reactive intermediates that damage phototrophic microorganisms. In Yellowstone National Park, the thermoacidophilic alga Cyanidioschyzon exhibits an annual seasonal biomass fluctuation referred to as 'mat decline', where algal viability decreases as ultraviolet and visible irradiances increase during summer. We examined the role irradiance might play in mat decline using irradiance filters that uncouple ultraviolet and visible effects along with custom microarrays to study gene expression in situ. Of the 6507 genes, 88% showed no response to ultraviolet or visible, implying that at the biomolecular level, these algae inhabit a chemostat-like environment and is consistent with the near constant aqueous chemistry measured. The remaining genes exhibited expression changes linked to ultraviolet exposure, to increased visible radiation, or to the apparent combined effects of ultraviolet and visible. Expression of DNA repetitive elements was synchronized, being repressed by visible but also influenced by ultraviolet. At highest irradiance levels, these algae reduced transcription of genes encoding functions involved with DNA replication, photosynthesis and cell cycle progression but exhibited an uptick in activities related to repairing DNA damage. This corroborates known physiological responses to ultraviolet and visible radiation, and leads us to provisionally conclude that mat decline is linked to photoinhibition. © 2013 Society for Applied Microbiology and John Wiley & Sons Ltd.

  9. Ancient photosynthetic eukaryote biofilms in an Atacama Desert coastal cave

    USGS Publications Warehouse

    Azua-Bustos, A.; Gonzalez-Silva, C.; Mancilla, R.A.; Salas, L.; Palma, R.E.; Wynne, J.J.; McKay, C.P.; Vicuna, R.

    2009-01-01

    Caves offer a stable and protected environment from harsh and changing outside prevailing conditions. Hence, they represent an interesting habitat for studying life in extreme environments. Here, we report the presence of a member of the ancient eukaryote red algae Cyanidium group in a coastal cave of the hyperarid Atacama Desert. This microorganism was found to form a seemingly monospecific biofilm growing under extremely low photon flux levels. Our work suggests that this species, Cyanidium sp. Atacama, is a new member of a recently proposed novel monophyletic lineage of mesophilic "cave" Cyanidium sp., distinct from the remaining three other lineages which are all thermo-acidophilic. The cave described in this work may represent an evolutionary island for life in the midst of the Atacama Desert. ?? Springer Science + Business Media, LLC 2009.

  10. Yellowstone Hotspot Geodynamics

    NASA Astrophysics Data System (ADS)

    Smith, R. B.; Farrell, J.; Massin, F.; Chang, W.; Puskas, C. M.; Steinberger, B. M.; Husen, S.

    2012-12-01

    The Yellowstone hotspot results from the interaction of a mantle plume with the overriding N. America plate producing a ~300-m high topographic swell centered on the Late Quaternary Yellowstone volcanic field. The Yellowstone area is dominated by earthquake swarms including a deadly M7.3 earthquake, extraordinary high heat flow up to ~40,000 mWm-2, and unprecedented episodes of crustal deformation. Seismic tomography and gravity data reveal a crustal magma reservoir, 6 to 15 km deep beneath the Yellowstone caldera but extending laterally ~20 km NE of the caldera and is ~30% larger than previously hypothesized. Kinematically, deformation of Yellowstone is dominated by regional crustal extension at up to ~0.4 cm/yr but with superimposed decadal-scale uplift and subsidence episodes, averaging ~2 cm/yr from 1923. From 2004 to 2009 Yellowstone experienced an accelerated uplift episode of up to 7 cm/yr whose source is modeled as magmatic recharge of a sill at the top of the crustal magma reservoir at 8-10-km depth. New mantle tomography suggest that Yellowstone volcanism is fed by an upper-mantle plume-shaped low velocity body that is composed of melt "blobs", extending from 80 km to 650 km in depth, tilting 60° NW, but then reversing tilt to ~60° SE to a depth of ~1500 km. Moreover, images of upper mantle conductivity from inversion of MT data reveal a high conductivity annulus around the north side of the plume in the upper mantle to resolved depths of ~300 km. On a larger scale, upper mantle flow beneath the western U.S. is characterized by eastward flow beneath Yellowstone at 5 cm/yr that deflects the plume to the west, and is underlain by a deeper zone of westerly return flow in the lower mantle reversing the deflection of the plume body to the SE. Dynamic modeling of the Yellowstone plume including a +15 m geoid anomaly reveals low excess plume temperatures, up to 150°K, consistent with a weak buoyancy flux of ~0.25 Mg/s. Integrated kinematic modeling of GPS

  11. Values associated with management of Yellowstone cutthroat trout in Yellowstone National Park

    USGS Publications Warehouse

    Gresswell, Robert E.; Liss, W.J.

    1995-01-01

    Recent emphasis on a holistic view of natural systems and their management is associated with a growing appreciation of the role of human values in these systems. In the past, resource management has been perceived as a dichotomy between extraction (harvest) and nonconsumptive use, but this appears to be an oversimplified view of natural-cultural systems. The recreational fishery for Yellowstone cutthroat trout (Oncorhynchus clarki bouvieri) in Yellowstone National Park is an example of the effects of management on a natural-cultural system. Although angler harvest has been drastically reduced or prohibited, the recreational value of Yellowstone cutthroat trout estimated by angling factors (such as landing rate or size) ranks above that of all other sport species in Yellowstone National Park. To maintain an indigenous fishery resource of this quality with hatchery propagation is not economically or technically feasible. Nonconsumptive uses of the Yellowstone cutthroat trout including fish-watching and intangible values, such as existence demand, provide additional support for protection of wild Yellowstone cutthroat trout populations. A management strategy that reduces resource extraction has provided a means to sustain a quality recreational fishery while enhancing values associated with the protection of natural systems.

  12. Chapter 5. Yellowstone cutthroat trout

    Treesearch

    Robert E. Gresswell

    1995-01-01

    The Yellowstone cutthroat trout is more abundant and inhabits a greater geographical range than does any other nonanadronnous subspecies of cutthroat trout (Varley and Gresswell 1988). The Yellowstone cutthroat trout was indigenous to the Snake River upstream from Shoshone Falls, Idaho, and the Yellowstone River above the Tongue River, Montana (Behnke 1992). Although...

  13. Three Short Videos by the Yellowstone Volcano Observatory

    USGS Publications Warehouse

    Wessells, Stephen; Lowenstern, Jake; Venezky, Dina

    2009-01-01

    This is a collection of videos of unscripted interviews with Jake Lowenstern, who is the Scientist in Charge of the Yellowstone Volcano Observatory (YVO). YVO was created as a partnership among the U.S. Geological Survey (USGS), Yellowstone National Park, and University of Utah to strengthen the long-term monitoring of volcanic and earthquake unrest in the Yellowstone National Park region. Yellowstone is the site of the largest and most diverse collection of natural thermal features in the world and the first National Park. YVO is one of the five USGS Volcano Observatories that monitor volcanoes within the United States for science and public safety. These video presentations give insights about many topics of interest about this area. Title: Yes! Yellowstone is a Volcano An unscripted interview, January 2009, 7:00 Minutes Description: USGS Scientist-in-Charge of Yellowstone Volcano Observatory, Jake Lowenstern, answers the following questions to explain volcanic features at Yellowstone: 'How do we know Yellowstone is a volcano?', 'What is a Supervolcano?', 'What is a Caldera?','Why are there geysers at Yellowstone?', and 'What are the other geologic hazards in Yellowstone?' Title: Yellowstone Volcano Observatory An unscripted interview, January 2009, 7:15 Minutes Description: USGS Scientist-in-Charge of Yellowstone Volcano Observatory, Jake Lowenstern, answers the following questions about the Yellowstone Volcano Observatory: 'What is YVO?', 'How do you monitor volcanic activity at Yellowstone?', 'How are satellites used to study deformation?', 'Do you monitor geysers or any other aspect of the Park?', 'Are earthquakes and ground deformation common at Yellowstone?', 'Why is YVO a relatively small group?', and 'Where can I get more information?' Title: Yellowstone Eruptions An unscripted interview, January 2009, 6.45 Minutes Description: USGS Scientist-in-Charge of Yellowstone Volcano Observatory, Jake Lowenstern, answers the following questions to explain volcanic

  14. Conservation of Yellowstone Cutthroat Trout in Yellowstone National Park: A Case Study

    ERIC Educational Resources Information Center

    Duncan, Michael B.; Murphy, Brian R.; Zale, Alexander V.

    2009-01-01

    The Yellowstone cutthroat trout (YCT; "Oncorhynchus clarki bouvieri") has become a species of special concern for Yellowstone National Park (YNP) fisheries biologists. Although this subspecies formerly occupied a greater area than any other inland cutthroat trout, the current distribution of YCT is now limited to several watersheds within the…

  15. The Yellowstone hotspot, Greater Yellowstone ecosystem, and human geography

    USGS Publications Warehouse

    Pierce, Kenneth L.; Despain, Don G.; Morgan, Lisa A.; Good, John M.; Morgan Morzel, Lisa Ann

    2007-01-01

    The effects of the Yellowstone hotspot also profoundly shaped the human history in the GYE. Uplift associated with the hotspot elevates the GYE to form the Continental Divide, and streams drain radially outward like spokes from a hub. Inhabitants of the GYE 12,000–10,000 years ago, as well as more recent inhabitants, followed the seasonal green-up of plants and migrating animals up into the mountain areas. During European immigration, people settled around Yellowstone in the lower parts of the drainages and established roads, irrigation systems, and cultural associations. The core Yellowstone highland is too harsh for agriculture and inhospitable to people in the winter. Beyond this core, urban and rural communities exist in valleys and are separated by upland areas. The partitioning inhibits any physical connection of communities, which in turn complicates pursuit of common interests across the whole GYE. Settlements thus geographically isolated evolved as diverse, independent communities

  16. Bathymetry and Geology of the Floor of Yellowstone Lake, Yellowstone National Park, Wyoming, Idaho, and Montana

    USGS Publications Warehouse

    Morgan, L.A.; Shanks, Wayne C.; Lee, G.K.; Webring, M.W.

    2007-01-01

    High-resolution, multi-beam sonar mapping of Yellowstone Lake was conducted by the U.S. Geological Survey in conjunction with the National Park Service from 1999 to 2002. Yellowstone Lake is the largest high-altitude lake in North America, at an altitude of 2,357 m with a surface area of 341 km2. More than 140 rivers and streams flow into Yellowstone Lake. The Yellowstone River, which enters at the southern end of the lake into the Southeast Arm, dominates the inflow of water and sediment (Shanks and others, 2005). The only outlet from the lake is at Fishing Bridge where the Yellowstone River flows northward discharging 375 to 4,600 cubic feet per second. The multi-beam sonar mapping occurred over a four-year period beginning in 1999 with mapping of the northern basin, continued in 2000 in West Thumb basin, in 2001 in the central basin, and in 2002 in the southern part of the lake including the Flat Mountain, South, and Southeast Arms.

  17. Feeding ecology of native and nonnative salmonids during the expansion of a nonnative apex predator in Yellowstone Lake, Yellowstone National Park

    USGS Publications Warehouse

    Syslo, John M.; Guy, Christopher S.; Koel, Todd M.

    2016-01-01

    The illegal introduction of Lake Trout Salvelinus namaycush into Yellowstone Lake, Yellowstone National Park, preceded the collapse of the native population of Yellowstone Cutthroat Trout Oncorhynchus clarkii bouvieri, producing a four-level trophic cascade. The Yellowstone Cutthroat Trout population’s collapse and the coinciding increase in Lake Trout abundance provided a rare opportunity to evaluate the feeding ecology of a native prey species and a nonnative piscivore species after the restructuring of a large lentic ecosystem. We assessed diets, stable isotope signatures, and depth-related CPUE patterns for Yellowstone Cutthroat Trout and Lake Trout during 2011–2013 to evaluate trophic overlap. To evaluate diet shifts related to density, we also compared 2011–2013 diets to those from studies conducted during previous periods with contrasting Yellowstone Cutthroat Trout and Lake Trout CPUEs. We illustrate the complex interactions between predator and prey in a simple assemblage and demonstrate how a nonnative apex predator can alter competitive interactions. The diets of Yellowstone Cutthroat Trout were dominated by zooplankton during a period when the Yellowstone Cutthroat Trout CPUE was high and were dominated by amphipods when the CPUE was reduced. Lake Trout shifted from a diet that was dominated by Yellowstone Cutthroat Trout during the early stages of the invasion to a diet that was dominated by amphipods after Lake Trout abundance had increased and after Yellowstone Cutthroat Trout prey had declined. The shifts in Yellowstone Cutthroat Trout and Lake Trout diets resulted in increased trophic similarity of these species through time due to their shared reliance on benthic amphipods. Yellowstone Cutthroat Trout not only face the threat posed by Lake Trout predation but also face the potential threat of competition with Lake Trout if amphipods are limiting. Our results demonstrate the importance of studying the long-term feeding ecology of fishes in

  18. Novel Thermo-Acidophilic Bacteria Isolated from Geothermal Sites in Yellowstone National Park: Physiological and Phylogenetic Characteristics

    DOE Office of Scientific and Technical Information (OSTI.GOV)

    D. B. Johnson; N. Okibe; F. F. Roberto

    Moderately thermophilic acidophilic bacteria were isolated from geothermal (30–83 °C) acidic (pH 2.7– 3.7) sites in Yellowstone National Park. The temperature maxima and pH minima of the isolates ranged from 50 to 65 °C, and pH 1.0–1.9. Eight of the bacteria were able to catalyze the dissimilatory oxidation of ferrous iron, and eleven could reduce ferric iron to ferrous iron in anaerobic cultures. Several of the isolates could also oxidize tetrathionate. Six of the iron-oxidizing isolates, and one obligate heterotroph, were low G+C gram-positive bacteria (Firmicutes). The former included three Sulfobacillus-like isolates (two closely related to a previously isolated Yellowstonemore » strain, and the third to a mesophilic bacterium isolated from Montserrat), while the other three appeared to belong to a different genus. The other two iron-oxidizers were an Actinobacterium (related to Acidimicrobium ferrooxidans) and a Methylobacterium-like isolate (a genus within the a-Proteobacteria that has not previously been found to contain either iron-oxidizers or acidophiles). The other three (heterotrophic) isolates were also a-Proteobacteria and appeared be a novel thermophilic Acidisphaera sp. An ARDREA protocol was developed to discriminate between the iron-oxidizing isolates. Digestion of amplified rRNA genes with two restriction enzymes (SnaBI and BsaAI) separated these bacteria into five distinct groups; this result was confirmed by analysis of sequenced rRNA genes.« less

  19. Squalenes, phytanes and other isoprenoids as major neutral lipids of methanogenic and thermoacidophilic 'archaebacteria'

    NASA Technical Reports Server (NTRS)

    Tornabene, T. G.; Langworthy, T. A.; Holzer, G.; Oro, J.

    1979-01-01

    The neutral lipids from nine species of methanogenic bacteria (five methanobacilli, two methanococci, a methanospirillum and a methanosarcina) and two thermoacidophilic bacteria (Thermo-plasma and Sulfolobus) have been analyzed. The neutral lipids were found to comprise a wide range (C14 to C30) of polyisoprenyl hydrocarbons with varying degrees of saturation. The principal components represented the three major isoprenoid series (C20 phytanyl, C25 pentaisoprenyl, and C30 squalenyl), in contrast with the neutral lipids of extreme halophiles, which consist predominantly of C2O (phytanyl, geranylgeraniol), C30 (squalenes), C40 (carotenes) and C50 (bacterioruberins compounds), as reported by Kates (1978). These results, which indicate strong general similarities between genetically diverse organisms, support the classification of these organisms in a separate phylogenetic group. The occurrence of similar isoprenoid compounds in petroleum and ancient sediments and the fact that the methanogens, halophiles and thermoacidophiles live in conditions presumed to have prevailed in archaen times suggest that the isoprenoid compounds in petroleum compounds and sediment may have been directly synthesized by organisms of this type

  20. The 1988 Fires in Yellowstone

    ERIC Educational Resources Information Center

    Dress, Abby

    2008-01-01

    The 1988 fires at Yellowstone National Park burned 1.4 million acres in the tri-state areas of Wyoming, Montana, and Idaho--encompassing the greater Yellowstone area--and burned some 800,000 acres within the park itself (Franke 2000). This article discusses this extraordinary fire event and contains helpful resources for bringing the science of…

  1. Impact of Molecular Hydrogen on Chalcopyrite Bioleaching by the Extremely Thermoacidophilic Archaeon Metallosphaera sedula▿

    PubMed Central

    Auernik, Kathryne S.; Kelly, Robert M.

    2010-01-01

    Hydrogen served as a competitive inorganic energy source, impacting the CuFeS2 bioleaching efficiency of the extremely thermoacidophilic archaeon Metallosphaera sedula. Open reading frames encoding key terminal oxidase and electron transport chain components were triggered by CuFeS2. Evidence of heterotrophic metabolism was noted after extended periods of bioleaching, presumably related to cell lysis. PMID:20190092

  2. Effects of water-resource development on Yellowstone River streamflow, 1928-2002

    USGS Publications Warehouse

    Eddy-Miller, Cheryl A.; Chase, Katherine J.

    2015-01-01

    Major floods in 1996 and 1997 intensified public concern about the effects of human activities on the Yellowstone River in Montana. In 1999, the Yellowstone River Conservation District Council, whose members are primarily representatives from the conservation districts bordering the main stem of the Yellowstone River, was formed to promote wise use and conservation of the Yellowstone River’s natural resources. The Yellowstone River Conservation District Council is working with the U.S. Army Corps of Engineers to understand the cumulative hydrologic effects of water-resource development in the Yellowstone River Basin. The U.S. Army Corps of Engineers, Yellowstone River Conservation District Council, and U.S. Geological Survey began cooperatively studying the Yellowstone River in 2010, publishing four reports describing streamflow information for selected sites in the Yellowstone River Basin, 1928–2002. Detailed information about the methods used, as well as summary streamflow statistics, are available in the four reports. The purpose of this fact sheet is to highlight findings from the published reports and describe the effects of water use and structures, primarily dams, on the Yellowstone River streamflow.

  3. Yellowstone Lake/National Park

    NASA Image and Video Library

    1994-09-30

    STS068-247-061 (30 September-11 October 1994) --- Photographed through the Space Shuttle Endeavour's flight windows, this 70mm frame centers on Yellowstone Lake in the Yellowstone National Park. North will be at the top if picture is oriented with series of sun glinted creeks and river branches at top center. The lake, at 2,320 meters (7,732 feet) above sea level, is the largest high altitude lake in North America. East of the park part of the Absaroka Range can be traced by following its north to south line of snow capped peaks. Jackson Lake is southeast of Yellowstone Park, and the connected Snake River can be seen in the lower left corner. Yellowstone, established in 1872 is the world's oldest national park. It covers an area of 9,000 kilometers (3,500 square miles), lying mainly on a broad plateau of the Rocky Mountains on the Continental Divide. It's average altitude is 2,440 meters (8,000 feet) above sea level. The plateau is surrounded by mountains exceeding 3,600 meters (12,000 feet) in height. Most of the plateau was formed from once-molten lava flows, the last of which is said to have occurred 100,000 years ago. Early volcanic activity is still evident in the region by nearly 10,000 hot springs, 200 geysers and numerous vents found throughout the park.

  4. Geothermal Monitoring in Yellowstone National Park

    NASA Astrophysics Data System (ADS)

    Heasler, H. P.; Jaworowski, C.; Susong, D. D.; Lowenstern, J. B.

    2007-12-01

    When the first exploring parties surveyed the Yellowstone region in the late 19th Century, it was the geologic wonders - geysers, hot springs, mudpots, fumaroles - that captured their imaginations. Because of these treasures, the U.S. Congress set aside and dedicated this land of "natural curiosities" as the world's first "public pleasuring ground". Protection of Yellowstone's unique geothermal features is a key mission of Yellowstone National Park as mandated by U. S. Congressional law. In response to that mandate, the Yellowstone National Park Geology Program developed a peer-reviewed, Geothermal Monitoring Plan in 2003. With partial Congressional funding of the Plan in 2005, implementation of a scientific monitoring effort began. Yellowstone's scientific geothermal monitoring effort includes the acquisition of time-temperature data using electronic data loggers, basic water quality data, chloride flux data, estimates of radiative heat flux using airborne, thermal infrared imagery, geothermal gas monitoring, and the monitoring of groundwater wells. Time- temperature data are acquired for geysers, hot springs, steam vents, wells, rivers, and the ground. Uses of the time-temperature data include public safety, calibrating airborne thermal infrared-imagery, monitoring selected thermal features for potential hydrothermal explosions, and determining the spatial and temporal changes in thermal areas. Since 2003, upgrades of Yellowstone's stream gaging network have improved the spatial and temporal precision of the chloride flux, water quality, and groundwater components of the Geothermal Monitoring Plan. All of these methods serve both for geothermal monitoring and volcano monitoring as part of the Yellowstone Volcano Observatory. A major component of the Geothermal Monitoring Plan is remote sensing of the Yellowstone volcano and its active hydrothermal areas at various scales. The National Center for Landscape Fire Analysis at the University of Montana and the USDA

  5. Seasonal gravity change at Yellowstone caldera

    NASA Astrophysics Data System (ADS)

    Poland, M. P.; de Zeeuw-van Dalfsen, E.

    2017-12-01

    The driving forces behind Yellowstone's dynamic deformation, vigorous hydrothermal system, and abundant seismicity are usually ascribed to "magmatic fluids," which could refer to magma, water, volatiles, or some combination. Deformation data alone cannot distinguish the relative importance of these fluids. Gravity measurements, however, provide an indication of mass change over time and, when combined with surface displacements, can constrain the density of subsurface fluids. Unfortunately, several decades of gravity surveys at Yellowstone have yielded ambiguous results. We suspect that the difficulty in interpreting Yellowstone gravity data is due to seasonal variations in environmental conditions—especially surface and ground water. Yellowstone gravity surveys are usually carried out at the same time of year (generally late summer) to minimize the impact of seasonality. Nevertheless, surface and subsurface water levels are not likely to be constant from year to year, given annual differences in precipitation. To assess the overall magnitude of seasonal gravity changes, we conducted gravity surveys of benchmarks in and around Yellowstone caldera in May, July, August, and October 2017. Our goal was to characterize seasonal variations due to snow melt/accumulation, changes in river and lake levels, changes in groundwater levels, and changes in hydrothermal activity. We also hope to identify sites that show little variation in gravity over the course of the 2017 surveys, as these locations may be less prone to seasonal changes and more likely to detect small variations due to magmatic processes. Preliminary examination of data collected in May and July 2017 emphasizes the importance of site location relative to sources of water. For example, a site on the banks of the Yellowstone River showed a gravity increase of several hundred microgals associated with a 50 cm increase in the river level. A high-altitude site far from rivers and lakes, in contrast, showed a

  6. Denali Park wolf studies: Implications for Yellowstone

    USGS Publications Warehouse

    Mech, L. David; Meier, Thomas J.; Burch, John W.

    1991-01-01

    The Northern Rocky Mountain Wolf Recovery Plan approved by the U.S. Fish and Wildlife Service (1987) recommends re-establishment of wolves (Canis lupus) in Yellowstone National Park. Bills proposing wolf re-establishment in the Park have been introduced into the U.S. House and Senate. However, several questions have been raised about the possible effects of wolf re-establishment on other Yellowstone Park fauna, on human use of the Park and on human use of surrounding areas. Thus the proposed wolf re-establishment remains controversial.Information pertinent to some of the above questions is available from a current study of wolf ecology in Denali National Park and Preserve, Alaska, which we began in 1986. Although Denali Park differs from Yellowstone in several ways, it is also similar enough in important respects to provide insight into questions raised about wolf re-establishment in Yellowstone.

  7. Steam explosions, earthquakes, and volcanic eruptions -- what's in Yellowstone's future?

    USGS Publications Warehouse

    Lowenstern, Jacob B.; Christiansen, Robert L.; Smith, Robert B.; Morgan, Lisa A.; Heasler, Henry

    2005-01-01

    Yellowstone, one of the world?s largest active volcanic systems, has produced several giant volcanic eruptions in the past few million years, as well as many smaller eruptions and steam explosions. Although no eruptions of lava or volcanic ash have occurred for many thousands of years, future eruptions are likely. In the next few hundred years, hazards will most probably be limited to ongoing geyser and hot-spring activity, occasional steam explosions, and moderate to large earthquakes. To better understand Yellowstone?s volcano and earthquake hazards and to help protect the public, the U.S. Geological Survey, the University of Utah, and Yellowstone National Park formed the Yellowstone Volcano Observatory, which continuously monitors activity in the region.

  8. A Thermoacidophile-Specific Protein Family, DUF3211, Functions as a Fatty Acid Carrier with Novel Binding Mode

    PubMed Central

    Miyakawa, Takuya; Sawano, Yoriko; Miyazono, Ken-ichi; Miyauchi, Yumiko; Hatano, Ken-ichi

    2013-01-01

    STK_08120 is a member of the thermoacidophile-specific DUF3211 protein family from Sulfolobus tokodaii strain 7. Its molecular function remains obscure, and sequence similarities for obtaining functional remarks are not available. In this study, the crystal structure of STK_08120 was determined at 1.79-Å resolution to predict its probable function using structure similarity searches. The structure adopts an α/β structure of a helix-grip fold, which is found in the START domain proteins with cavities for hydrophobic substrates or ligands. The detailed structural features implied that fatty acids are the primary ligand candidates for STK_08120, and binding assays revealed that the protein bound long-chain saturated fatty acids (>C14) and their trans-unsaturated types with an affinity equal to that for major fatty acid binding proteins in mammals and plants. Moreover, the structure of an STK_08120-myristic acid complex revealed a unique binding mode among fatty acid binding proteins. These results suggest that the thermoacidophile-specific protein family DUF3211 functions as a fatty acid carrier with a novel binding mode. PMID:23836863

  9. Post-glacial inflation-deflation cycles, tilting, and faulting in the Yellowstone Caldera based on Yellowstone Lake shorelines

    USGS Publications Warehouse

    Pierce, Kenneth L.; Cannon, Kenneth P.; Meyer, Grant A.; Trebesch, Matthew J.; Watts, Raymond D.

    2002-01-01

    The Yellowstone caldera, like many other later Quaternary calderas of the world, exhibits dramatic unrest. Between 1923 and 1985, the center of the Yellowstone caldera rose nearly one meter along an axis between its two resurgent domes (Pelton and Smith, 1979, Dzurisin and Yamashita, 1987). From 1985 until 1995-6, it subsided at about two cm/yr (Dzurisin and others, 1990). More recent radar interferometry studies show renewed inflation of the northeastern resurgent dome between 1995 and 1996; this inflation migrated to the southwestern resurgent dome from 1996 to 1997 (Wicks and others, 1998). We extend this record back in time using dated geomorphic evidence of postglacial Yellowstone Lake shorelines around the northern shore, and Yellowstone River levels in the outlet area. We date these shorelines using carbon isotopic and archeological methods. Following Meyer and Locke (1986) and Locke and Meyer (1994), we identify the modern shoreline as S1 (1.9 ? 0.3 m above the lake gage datum), map paleoshoreline terraces S2 to S6, and infer that the prominent shorelines were cut during intracaldera uplift episodes that produced rising water levels. Doming along the caldera axis reduces the gradient of the Yellowstone River from Le Hardys Rapids to the Yellowstone Lake outlet and ultimately causes an increase in lake level. The 1923-1985 doming is part of a longer uplift episode that has reduced the Yellowstone River gradient to a ?pool? with a drop of only 0.25 m over most of this 5 km reach. We also present new evidence that doming has caused submergence of some Holocene lake and river levels. Shoreline S5 is about 14 m above datum and estimated to be ~12.6 ka, because it post-dates a large hydrothermal explosion deposit from the Mary Bay area (MB-II) that occurred ~13 ka. S4 formed about 8 m above datum ~10.7 ka as dated by archeology and 14C, and was accompanied by offset on the Fishing Bridge fault. About 9.7 ka, the Yellowstone River eroded the ?S-meander?, followed

  10. New challenges for grizzly bear management in Yellowstone National Park

    USGS Publications Warehouse

    van Manen, Frank T.; Gunther, Kerry A.

    2016-01-01

    A key factor contributing to the success of grizzly bear Ursus arctos conservation in the Greater Yellowstone Ecosystem has been the existence of a large protected area, Yellowstone National Park. We provide an overview of recovery efforts, how demographic parameters changed as the population increased, and how the bear management program in Yellowstone National Park has evolved to address new management challenges over time. Finally, using the management experiences in Yellowstone National Park, we present comparisons and perspectives regarding brown bear management in Shiretoko National Park.

  11. Stable, inducible thermoacidophilic alpha-amylase from Bacillus acidocaldarius.

    PubMed Central

    Buonocore, V; Caporale, C; De Rosa, M; Gambacorta, A

    1976-01-01

    Bacillus acidocaldarius Agnano 101 produces an inducible thermoacidophilic alpha-amylase. The enzyme production occurs during the stationary phase of growth in the presence of compounds with alpha-1,4-glucosidic linkages. The enzymatic activity is both present in the culture medium and associated with the cells; the enzymes purified from both sources show identical molecular and catalytic properties. The purified amylase has a single polypeptide chain of molecular weight 68,000 and behaves like an alpha-amylase with affinity constants for starch and related substances of 0.8 to 0.9 mg/ml. The pH and temperature optima for activity are 3.5 and 75degreesC, respectively. The amylase is stable at acidic pH (below 4.5). Its thermal stability is strictly dependent upon protein concentration; the half-life at 60degreesC of the amylase in a 70-mug/ml solution is about 5 days. PMID:10276

  12. Upper-mantle origin of the Yellowstone hotspot

    USGS Publications Warehouse

    Christiansen, R.L.; Foulger, G.R.; Evans, J.R.

    2002-01-01

    Fundamental features of the geology and tectonic setting of the northeast-propagating Yellowstone hotspot are not explained by a simple deep-mantle plume hypothesis and, within that framework, must be attributed to coincidence or be explained by auxiliary hypotheses. These features include the persistence of basaltic magmatism along the hotspot track, the origin of the hotspot during a regional middle Miocene tectonic reorganization, a similar and coeval zone of northwestward magmatic propagation, the occurrence of both zones of magmatic propagation along a first-order tectonic boundary, and control of the hotspot track by preexisting structures. Seismic imaging provides no evidence for, and several contraindications of, a vertically extensive plume-like structure beneath Yellowstone or a broad trailing plume head beneath the eastern Snake River Plain. The high helium isotope ratios observed at Yellowstone and other hotspots are commonly assumed to arise from the lower mantle, but upper-mantle processes can explain the observations. The available evidence thus renders an upper-mantle origin for the Yellowstone system the preferred model; there is no evidence that the system extends deeper than ???200 km, and some evidence that it does not. A model whereby the Yellowstone system reflects feedback between upper-mantle convection and regional lithospheric tectonics is able to explain the observations better than a deep-mantle plume hypothesis.

  13. Uplift, thermal unrest and magma intrusion at Yellowstone caldera

    USGS Publications Warehouse

    Wicks, Charles W.; Thatcher, Wayne; Dzurisin, Daniel; Svarc, Jerry

    2006-01-01

    The Yellowstone caldera, in the western United States, formed 640,000 years ago when an explosive eruption ejected 1,000 km3 of material1. It is the youngest of a series of large calderas that formed during sequential cataclysmic eruptions that began 16 million years ago in eastern Oregon and northern Nevada. The Yellowstone caldera was largely buried by rhyolite lava flows during eruptions that occurred from 150,000 to 70,000 years ago1. Since the last eruption, Yellowstone has remained restless, with high seismicity, continuing uplift/subsidence episodes with movements of 70 cm historically2 to several metres since the Pleistocene epoch3, and intense hydrothermal activity. Here we present observations of a new mode of surface deformation in Yellowstone, based on radar interferometry observations from the European Space Agency ERS-2 satellite. We infer that the observed pattern of uplift and subsidence results from variations in the movement of molten basalt into and out of the Yellowstone volcanic system.

  14. Uplift, thermal unrest and magma intrusion at Yellowstone caldera.

    PubMed

    Wicks, Charles W; Thatcher, Wayne; Dzurisin, Daniel; Svarc, Jerry

    2006-03-02

    The Yellowstone caldera, in the western United States, formed approximately 640,000 years ago when an explosive eruption ejected approximately 1,000 km3 of material. It is the youngest of a series of large calderas that formed during sequential cataclysmic eruptions that began approximately 16 million years ago in eastern Oregon and northern Nevada. The Yellowstone caldera was largely buried by rhyolite lava flows during eruptions that occurred from approximately 150,000 to approximately 70,000 years ago. Since the last eruption, Yellowstone has remained restless, with high seismicity, continuing uplift/subsidence episodes with movements of approximately 70 cm historically to several metres since the Pleistocene epoch, and intense hydrothermal activity. Here we present observations of a new mode of surface deformation in Yellowstone, based on radar interferometry observations from the European Space Agency ERS-2 satellite. We infer that the observed pattern of uplift and subsidence results from variations in the movement of molten basalt into and out of the Yellowstone volcanic system.

  15. Effects of exotic species on Yellowstone's grizzly bears

    USGS Publications Warehouse

    Reinhart, Daniel P.; Haroldson, Mark A.; Mattson, D.J.; Gunther, Kerry A.

    2001-01-01

    Humans have affected grizzly bears (Ursus arctos horribilis) by direct mortality, competition for space and resources, and introduction of exotic species. Exotic organisms that have affected grizzly bears in the Greater Yellowstone Area include common dandelion (Taraxacum officinale), nonnative clovers (Trifolium spp.), domesticated livestock, bovine brucellosis (Brucella abortus), lake trout (Salvelinus namaycush), and white pine blister rust (Cronartium ribicola). Some bears consume substantial amounts of dandelion and clover. However, these exotic foods provide little digested energy compared to higher-quality bear foods. Domestic livestock are of greater energetic value, but use of this food by bears often leads to conflicts with humans and subsequent increases in bear mortality. Lake trout, blister rust, and brucellosis diminish grizzly bears foods. Lake trout prey on native cutthroat trout (Oncorhynchus clarkii) in Yellowstone Lake; white pine blister rust has the potential to destroy native whitebark pine (Pinus albicaulis) stands; and management response to bovine brucellosis, a disease found in the Yellowstone bison (Bison bison) and elk (Cervus elaphus), could reduce populations of these 2 species. Exotic species will likely cause more harm than good for Yellowstone grizzly bears. Managers have few options to mitigate or contain the impacts of exotics on Yellowstone's grizzly bears. Moreover, their potential negative impacts have only begun to unfold. Exotic species may lead to the loss of substantial highquality grizzly bear foods, including much of the bison, trout, and pine seeds that Yellowstone grizzly bears currently depend upon.

  16. Expedition: Yellowstone! A Cooperative School Outreach Project.

    ERIC Educational Resources Information Center

    de Golia, Jack; And Others

    Designed to help upper elementary school teachers prepare for a class expedition to Yellowstone National Park, this workbook presents environmental learning activities that are also useful in schools too distant for an actual visit. Either way, the workbook aims to develop student appreciation of Yellowstone, the life in it, and the park's value…

  17. YELLOWSTONE MAGMATIC-HYDROTHERMAL SYSTEM, U. S. A.

    USGS Publications Warehouse

    Fournier, R.O.; Pitt, A.M.; ,

    1985-01-01

    At Yellowstone National Park, the deep permeability and fluid circulation are probably controlled and maintained by repeated brittle fracture of rocks in response to local and regional stress. Focal depths of earthquakes beneath the Yellowstone caldera suggest that the transition from brittle fracture to quasi-plastic flow takes place at about 3 to 4 km. The maximum temperature likely to be attained by the hydrothermal system is 350 to 450 degree C, the convective thermal output is about 5. 5 multiplied by 10**9 watts, and the minimum average thermal flux is about 1800 mW/m**2 throughout 2,500 km**2. The average thermal gradient between the heat source and the convecting hydrothermal system must be at least 700 to 1000 degree C/km. Crystallization and partial cooling of about 0. 082 km**3 of basalt or 0. 10 km**3 of rhyolite annually could furnish the heat discharged in the hot-spring system. The Yellowstone magmatic-hydrothermal system as a whole appears to be cooling down, in spite of a relatively large rate of inflation of the Yellowstone caldera.

  18. Using geochemistry in the greater Yellowstone area

    USGS Publications Warehouse

    ,

    1995-01-01

    The greater Yellowstone area lies within adjoining parts of Wyoming, Montana, and Idaho (see figure) and includes Yellowstone and Grand Teton National Parks, parts of six national forests, plus State lands, national wildlife refuges, Bureau of Land Management lands, and private lands. This area is known worldwide for its scenic beauty, wildlife, and geologic and geothermal features.

  19. Origins of geothermal gases at Yellowstone

    USGS Publications Warehouse

    Lowenstern, Jacob B.; Bergfeld, Deborah; Evans, William C.; Hunt, Andrew G.

    2015-01-01

    Gas emissions at the Yellowstone Plateau Volcanic Field (YPVF) reflect open-system mixing of gas species originating from diverse rock types, magmas, and crustal fluids, all combined in varying proportions at different thermal areas. Gases are not necessarily in chemical equilibrium with the waters through which they vent, especially in acid sulfate terrain where bubbles stream through stagnant acid water. Gases in adjacent thermal areas often can be differentiated by isotopic and gas ratios, and cannot be tied to one another solely by shallow processes such as boiling-induced fractionation of a parent liquid. Instead, they inherit unique gas ratios (e.g., CH4/He) from the dominant rock reservoirs where they originate, some of which underlie the Quaternary volcanic rocks. Steam/gas ratios (essentially H2O/CO2) of Yellowstone fumaroles correlate with Ar/He and N2/CO2, strongly suggesting that H2O/CO2 is controlled by addition of steam boiled from water rich in atmospheric gases. Moreover, H2O/CO2 varies systematically with geographic location, such that boiling is more enhanced in some areas than others. The δ13C and 3He/CO2 of gases reflect a dominant mantle origin for CO2 in Yellowstone gas. The mantle signature is most evident at Mud Volcano, which hosts gases with the lowest H2O/CO2, lowest CH4 concentrations and highest He isotope ratios (~16Ra), consistent with either a young subsurface intrusion or less input of crustal and meteoric gas than any other location at Yellowstone. Across the YPVF, He isotope ratios (3He/4He) inversely vary with He concentrations, and reflect varied amounts of long- stored, radiogenic He added to the magmatic endmember within the crust. Similarly, addition of CH4 from organic-rich sediments is common in the eastern thermal areas at Yellowstone. Overall, Yellowstone gases reflect addition of deep, high-temperature magmatic gas (CO2-rich), lower-temperatures crustal gases (4He- and CH4-bearing), and those gases (N2, Ne, Ar) added

  20. Myxobolus cerebralis in native cutthroat trout of the Yellowstone Lake ecosystem

    USGS Publications Warehouse

    Koel, T.M.; Mahony, D.L.; Kinnan, K.L.; Rasmussen, C.; Hudson, C.J.; Murcia, S.; Kerans, B.L.

    2006-01-01

    The exotic parasite Myxobolus cerebralis was first detected in native adult Yellowstone cutthroat trout Oncorhynchus clarkii bouvierii from Yellowstone Lake in 1998, seriously threatening the ecological integrity of this pristine, naturally functioning ecosystem. We immediately began to assess the prevalence and spatial extent of M. cerebralis infection in Yellowstone cutthroat trout within Yellowstone Lake and to determine the infection risk of age-0 Yellowstone cutthroat trout, the relative abundance and actinospore production of lubificid worms, and the basic environmental characteristics of tributaries. During 1999-2001, juvenile and adult Yellowstone cutthroat trout were infected throughout Yellowstone Lake; the highest prevalence (15.3-16.4%) occurred in the northern and central regions. Exposure studies in 13 streams indicated that Pelican and Clear creeks and the Yellowstone River were positive for M. cerebralis; the highest prevalence (100%) and severity was found in Pelican Creek during mid-July. Sexually mature individuals of the oligochaete Tubifex tubifex were most abundant in early summer, were genetically homogenous, and were members of a lineage known to produce moderate to high levels of M. cerebralis triactinomyxons. Only 20 of the 3,037 sampled tubificids produced actinospores after 7 d in culture, and none of the actinospores were M. cerebralis. However, one non-actinospore-producing T. tubifex from Pelican Creek tested positive for M. cerebralis by polymerase chain reaction. Stream temperatures at Pelican Creek, a fourth-order, low-gradient stream, were over 20??C during the first exposure period, suggesting that T. tubifex were capable of producing triactinomyxons at elevated temperatures in the wild. Although the infection of otherwise healthy adult Yellowstone cutthroat trout within Yellowstone Lake suggests some resistance, our sentinel cage exposures indicated that this subspecies may be more susceptible to whirling disease than previous

  1. Distributions of small nongame fishes in the lower Yellowstone River

    USGS Publications Warehouse

    Duncan, Michael B.; Bramblett, Robert G.; Zale, Alexander V.

    2016-01-01

    The Yellowstone River is the longest unimpounded river in the conterminous United States. It has a relatively natural flow regime, which helps maintain diverse habitats and fish assemblages uncommon in large rivers elsewhere. The lower Yellowstone River was thought to support a diverse nongame fish assemblage including several species of special concern. However, comprehensive data on the small nongame fish assemblage of the lower Yellowstone River is lacking. Therefore, we sampled the Yellowstone River downstream of its confluence with the Clark’s Fork using fyke nets and otter trawls to assess distributions and abundances of small nongame fishes. We captured 42 species (24 native and 18 nonnative) in the lower Yellowstone River with fyke nets. Native species constituted over 99% of the catch. Emerald shiners Notropis atherinoides, western silvery minnows Hybognathus argyritis, flathead chubs Platygobio gracilis, sand shiners Notropis stramineus, and longnose dace Rhinichthys cataractae composed nearly 94% of fyke net catch and were caught in every segment of the study area. We captured 24 species by otter trawling downstream of the Tongue River. Sturgeon chubs Macrhybopsis gelida, channel catfish Ictalurus punctatus, flathead chubs, stonecats Noturus flavus, and sicklefin chubs Macrhybopsis meeki composed 89% of the otter trawl catch. The upstream distributional limit of sturgeon chubs in the Yellowstone River was the Tongue River; few sicklefin chubs were captured above Intake Diversion Dam. This study not only provides biologists with baseline data for future monitoring efforts on the Yellowstone River but serves as a benchmark for management and conservation efforts in large rivers elsewhere as the Yellowstone River represents one of the best references for a naturally functioning Great Plains river.

  2. Life in hot acid: Pathway analyses in extremely thermoacidophilic archaea

    PubMed Central

    Auernik, Kathryne S.; Cooper, Charlotte R.; Kelly, Robert M.

    2013-01-01

    SUMMARY The extremely thermoacidophilic archaea are a particularly intriguing group of microorganisms that must simultaneously cope with biologically extreme pHs (≤ 4) and temperatures (Topt ≥ 60°C) in their natural environments. Their expandi ng biotechnological significance relates to their role in biomining of base and precious metals and their unique mechanisms of survival in hot acid, at both the cellular and biomolecular levels. Recent developments, such as advances in understanding of heavy metal tolerance mechanisms, implementation of a genetic system, and discovery of a new carbon fixation pathway, have been facilitated by availability of genome sequence data and molecular genetic systems. As a result, new insights into the metabolic pathways and physiological features that define extreme thermoacidophily have been obtained, in some cases suggesting prospects for biotechnological opportunities. PMID:18760359

  3. River Chemistry and Solute Flux in Yellowstone National Park

    USGS Publications Warehouse

    Hurwitz, Shaul; Eagan, Sean; Heasler, Henry; Mahony, Dan; Huebner, Mark A.; Lowenstern, Jacob B.

    2007-01-01

    Introduction The Yellowstone Volcano Observatory (YVO) was established to 'To strengthen the long-term monitoring of volcanic and earthquake unrest in the Yellowstone National Park region'. Yellowstone National Park is underlain by a voluminous magmatic system overlain by the most active hydrothermal system on Earth. Tracking changes in water and gas chemistry is of great importance because anomalous fluxes might signal one of the earliest warnings of volcanic unrest. Because of the tremendous number, chemical diversity, and large aerial coverage of Yellowstone's thermal features, it remains daunting to monitor individual features that might serve as proxies for anomalous activity in the hydrothermal system. Sampling rivers provides some advantages, because they integrate chemical fluxes over a very large area and therefore, river fluxes may reveal large-scale spatial patterns (Hurwitz et al., 2007). In addition, based on the application of the chloride-enthalpy method (Fournier, 1979), quantifying chloride flux in rivers provides an estimate of the total heat discharge from the Yellowstone volcanic system (Norton and Friedman 1985; Fournier, 1989; Friedman and Norton, in press). Intermittent sampling of the large rivers draining Yellowstone National Park began in the 1960's (Fournier et al., 1976) and continuous sampling has been carried out since water year (1 October - 30 September) 1983 excluding water years 1995 and 1996 (Norton and Friedman, 1985, 1991; Friedman and Norton, 1990, 2000, 2007). Between 1983 and 2001 only Cl concentrations and fluxes were determined. Starting in water year 2002, the concentrations and fluxes of other anions of possible magmatic origin (F-, Br-, HCO3- , and SO42-) were also determined, and several new sampling sites were established (Hurwitz et al., 2007). The ongoing sampling and analysis of river solute flux is a key component in the current monitoring program of YVO, and it is a collaboration between the U.S. Geological Survey

  4. 75 FR 53979 - Bison Brucellosis Remote Vaccination, Draft Environmental Impact Statement, Yellowstone National...

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-09-02

    ... CONTACT: The Bison Ecology and Management Office, Yellowstone National Park, P.O. Box 168, Yellowstone... comments to the Bison Ecology and Management Office, Center for Resources, P.O. Box 168, Yellowstone...

  5. Snowmelt hydrograph interpretation: Revealing watershed scale hydrologic characteristics of the Yellowstone volcanic plateau

    USGS Publications Warehouse

    Payton, Gardner W.; Susong, D.D.; Kip, Solomon D.; Heasler, H.

    2010-01-01

    Snowmelt hydrograph analysis and groundwater age dates of cool water springs on the Yellowstone volcanic plateau provide evidence of high volumes of groundwater circulation in watersheds comprised of quaternary Yellowstone volcanics. Ratios of maximum to minimum mean daily discharge and average recession indices are calculated for watersheds within and surrounding the Yellowstone volcanic plateau. A model for snowmelt recession is used to separate groundwater discharge from overland runoff, and compare groundwater systems. Hydrograph signal interpretation is corroborated with chlorofluorocarbon (CFC) and tritium concentrations in cool water springs on the Yellowstone volcanic plateau. Hydrograph parameters show a spatial pattern correlated with watershed geology. Watersheds comprised dominantly of quaternary Yellowstone volcanics are characterized by slow streamflow recession, low maximum to minimum flow ratios. Cool springs sampled within the Park contain CFC's and tritium and have apparent CFC age dates that range from about 50 years to modern. Watersheds comprised of quaternary Yellowstone volcanics have a large volume of active groundwater circulation. A large, advecting groundwater field would be the dominant mechanism for mass and energy transport in the shallow crust of the Yellowstone volcanic plateau, and thus control the Yellowstone hydrothermal system. ?? 2009 Elsevier B.V.

  6. Long-term aspen exclosures in the Yellowstone ecosystem

    Treesearch

    Charles E. Kay

    2001-01-01

    Aspen has been declining in the Yellowstone Ecosystem for more than 80 years. Some authors have suggested that aspen is a marginal plant community in Yellowstone and that recent climatic variation has adversely affected aspen, while others contend that excessive browsing by native ungulates is primarily responsible for aspen's widespread decline. To test these...

  7. Track of the Yellowstone hotspot: young and ongoing geologic processes from the Snake River Plain to the Yellowstone Plateau and Tetons

    USGS Publications Warehouse

    Morgan, Lisa A.; Pierce, Kenneth L.; Shanks, Pat; Raynolds, Robert G.H.

    2008-01-01

    This field trip highlights various stages in the evolution of the Snake River Plain–Yellowstone Plateau bimodal volcanic province, and associated faulting and uplift, also known as the track of the Yellowstone hotspot. The 16 Ma Yellowstone hotspot track is one of the few places on Earth where time-transgressive processes on continental crust can be observed in the volcanic and tectonic (faulting and uplift) record at the rate and direction predicted by plate motion. Recent interest in young and possible renewed volcanism at Yellowstone along with new discoveries and synthesis of previous studies, i.e., tomographic, deformation, bathymetric, and seismic surveys, provide a framework of evidence of plate motion over a mantle plume. This 3-day trip is organized to present an overview into volcanism and tectonism in this dynamically active region. Field trip stops will include the young basaltic Craters of the Moon, exposures of 12–4 Ma rhyolites and edges of their associated collapsed calderas on the Snake River Plain, and exposures of faults which show an age progression similar to the volcanic fields. An essential stop is Yellowstone National Park, where the last major caldera-forming event occurred 640,000 years ago and now is host to the world's largest concentration of hydrothermal features (>10,000 hot springs and geysers). This trip presents a quick, intensive overview into volcanism and tectonism in this dynamically active region. Field stops are directly linked to conceptual models related to hotspot passage through this volcano-tectonic province. Features that may reflect a tilted thermal mantle plume suggested in recent tomographic studies will be examined. The drive home will pass through Grand Teton National Park, where the Teton Range is currently rising in response to the passage of the North American plate over the Yellowstone hotspot.

  8. Geologic field-trip guide to the volcanic and hydrothermal landscape of the Yellowstone Plateau

    USGS Publications Warehouse

    Morgan Morzel, Lisa Ann; Shanks, W. C. Pat; Lowenstern, Jacob B.; Farrell, Jamie M.; Robinson, Joel E.

    2017-11-20

    Yellowstone National Park, a nearly 9,000 km2 (~3,468 mi2) area, was preserved in 1872 as the world’s first national park for its unique, extraordinary, and magnificent natural features. Rimmed by a crescent of older mountainous terrain, Yellowstone National Park has at its core the Quaternary Yellowstone Plateau, an undulating landscape shaped by forces of late Cenozoic explosive and effusive volcanism, on-going tectonism, glaciation, and hydrothermal activity. The Yellowstone Caldera is the centerpiece of the Yellowstone Plateau. The Yellowstone Plateau lies at the most northeastern front of the 17-Ma Yellowstone hot spot track, one of the few places on Earth where time-transgressive processes on continental crust can be observed in the volcanic and tectonic (faulting and uplift) record at the rate and direction predicted by plate motion. Over six days, this field trip presents an intensive overview into volcanism, tectonism, and hydrothermal activity on the Yellowstone Plateau (fig. 1). Field stops are linked directly to conceptual models related to monitoring of the various volcanic, geochemical, hydrothermal, and tectonic aspects of the greater Yellowstone system. Recent interest in young and possible future volcanism at Yellowstone as well as new discoveries and synthesis of previous studies, (for example, tomographic, deformation, gas, aeromagnetic, bathymetric, and seismic surveys), provide a framework in which to discuss volcanic, hydrothermal, and seismic activity in this dynamic region.

  9. Yellowstone bison fetal development and phenology of parturition

    USGS Publications Warehouse

    Gogan, P.J.P.; Podruzny, K.M.; Olexa, E.M.; Pac, H.I.; Frey, K.L.

    2005-01-01

    Knowledge of Yellowstone bison (Bison bison) parturition patterns allows managers to refine risk assessments and manage to reduce the potential for transmission of brucellosis between bison and cattle. We used historical (1941) and contemporary (1989–2002) weights and morphometric measurements of Yellowstone bison fetuses to describe fetal growth and to predict timing and synchrony of parturition. Our method was supported by agreement between our predicted parturition pattern and observed birth dates for bison that were taken in to captivity while pregnant. The distribution of parturition dates in Yellowstone bison is generally right-skewed with a majority of births in April and May and few births in the following months. Predicted timing of parturition was consistently earlier for bison of Yellowstone's northern herd than central herd. The predicted median parturition date for northern herd bison in the historical period was 3 to 12 days earlier than for 2 years in the contemporary period, respectively. Median predicted birth dates and birthing synchrony differed within herds and years in the contemporary period. For a single year of paired data, the predicted median birth date for northern herd bison was 14 days earlier than for central herd bison. This difference is coincident with an earlier onset of spring plant growth on the northern range. Our findings permit refinement of the timing of separation between Yellowstone bison and cattle intended to reduce the probability of transmission of brucellosis from bison to cattle.

  10. Niche specialization of novel Thaumarchaeota to oxic and hypoxic acidic geothermal springs of Yellowstone National Park

    PubMed Central

    Beam, Jacob P; Jay, Zackary J; Kozubal, Mark A; Inskeep, William P

    2014-01-01

    Novel lineages of the phylum Thaumarchaeota are endemic to thermal habitats, and may exhibit physiological capabilities that are not yet observed in members of this phylum. The primary goals of this study were to conduct detailed phylogenetic and functional analyses of metagenome sequence assemblies of two different thaumarchaeal populations found in high-temperature (65–72 °C), acidic (pH∼3) iron oxide and sulfur sediment environments of Yellowstone National Park (YNP). Metabolic reconstruction was coupled with detailed geochemical measurements of each geothermal habitat and reverse-transcriptase PCR to confirm the in situ activity of these populations. Phylogenetic analyses of ribosomal and housekeeping proteins place these archaea near the root of the thaumarchaeal branch. Metabolic reconstruction suggests that these populations are chemoorganotrophic and couple growth with the reduction of oxygen or nitrate in iron oxide habitats, or sulfur in hypoxic sulfur sediments. The iron oxide population has the potential for growth via the oxidation of sulfide to sulfate using a novel reverse sulfate reduction pathway. Possible carbon sources include aromatic compounds (for example, 4-hydroxyphenylacetate), complex carbohydrates (for example, starch), oligopeptides and amino acids. Both populations contain a type III ribulose bisphosphate carboxylase/oxygenase used for carbon dioxide fixation or adenosine monophosphate salvage. No evidence for the oxidation of ammonia was obtained from de novo sequence assemblies. Our results show that thermoacidophilic Thaumarchaeota from oxic iron mats and hypoxic sulfur sediments exhibit different respiratory machinery depending on the presence of oxygen versus sulfide, represent deeply rooted lineages within the phylum Thaumarchaeota and are endemic to numerous sites in YNP. PMID:24196321

  11. Archaebacteria: A New Primary Kingdom for Our Classrooms.

    ERIC Educational Resources Information Center

    Evans, Robert H.

    1983-01-01

    Characteristics of the archaebacteria (comprising the methanogenic, thermoacidophilic, and extreme halophilic bacteria) are discussed, including comparisons of molecular traits for archaebacteria, eubacteria, eukaryotes, and taxonomic considerations. Issues related to integrating the archaebacteria into biology curricula and teaching about the…

  12. The chimeric eukaryote: origin of the nucleus from the karyomastigont in amitochondriate protists

    NASA Technical Reports Server (NTRS)

    Margulis, L.; Dolan, M. F.; Guerrero, R.

    2000-01-01

    We present a testable model for the origin of the nucleus, the membrane-bounded organelle that defines eukaryotes. A chimeric cell evolved via symbiogenesis by syntrophic merger between an archaebacterium and a eubacterium. The archaebacterium, a thermoacidophil resembling extant Thermoplasma, generated hydrogen sulfide to protect the eubacterium, a heterotrophic swimmer comparable to Spirochaeta or Hollandina that oxidized sulfide to sulfur. Selection pressure for speed swimming and oxygen avoidance led to an ancient analogue of the extant cosmopolitan bacterial consortium "Thiodendron latens." By eubacterial-archaebacterial genetic integration, the chimera, an amitochondriate heterotroph, evolved. This "earliest branching protist" that formed by permanent DNA recombination generated the nucleus as a component of the karyomastigont, an intracellular complex that assured genetic continuity of the former symbionts. The karyomastigont organellar system, common in extant amitochondriate protists as well as in presumed mitochondriate ancestors, minimally consists of a single nucleus, a single kinetosome and their protein connector. As predecessor of standard mitosis, the karyomastigont preceded free (unattached) nuclei. The nucleus evolved in karyomastigont ancestors by detachment at least five times (archamoebae, calonymphids, chlorophyte green algae, ciliates, foraminifera). This specific model of syntrophic chimeric fusion can be proved by sequence comparison of functional domains of motility proteins isolated from candidate taxa.

  13. Lessons from geothermal gases at Yellowstone

    NASA Astrophysics Data System (ADS)

    Lowenstern, J. B.; Bergfeld, D.; Evans, W.; Hurwitz, S.

    2015-12-01

    The magma-hydrothermal system of the Yellowstone Plateau Volcanic Field encompasses over ten thousand individual springs, seeps, and fumaroles spread out over >9000 square kilometers, and produces a range of acid, neutral and alkaline waters. A prominent model (Fournier, 1989 and related papers) concludes that many neutral and alkaline fluids found in hot springs and geysers are derived from a uniform, high-enthalpy parent fluid through processes such as deep boiling and mixing with dilute meteoric groundwater. Acid waters are generally condensates of gas-bearing steam that boils off of subsurface geothermal waters. Our recent studies of gases at Yellowstone (Lowenstern et al., 2015 and references therein) are compatible with such a model, but also reveal that gases are largely decoupled from thermal waters due to open-system addition of abundant deep gas to (comparatively) shallow circulating thermal waters. Fumarole emissions at Yellowstone range from gas-rich (up to 15 mol%) composed of deeply derived CO2, He and CH4, to steam-rich emissions (<0.01% gas) dominated by N2 and Ar. The clear implication is that deep gas is diluted with atmospheric gas boiled off of geothermal liquids. The general trend is antithetical to that predicted by progressive boiling of a parent fluid (Rayleigh or batch degassing), where decreasing gas content should correlate with increasing proportions of soluble gas (i.e., CO2). Deep gas at Yellowstone fits into two general categories: 1) mantle-derived CO2 with a hotspot He isotope signature (>16 RA) and low CH4 and He concentrations and 2) mantle-derived CO2 with much higher CH4 and/or He concentrations and abundant radiogenic He picked up from crustal degassing. Individual thermal areas have distinct CH4/He. It remains unclear whether some gas ratios mainly reflect subsurface geothermal temperatures. Instead, they may simply reflect signatures imparted by local rock types and mixing on timescales too fast for reequilibration. Overall

  14. Volcanic Stratigraphy of the Quaternary Rhyolite Plateau in Yellowstone National Park

    USGS Publications Warehouse

    Christiansen, Robert L.; Blank, H. Richard

    1972-01-01

    The volcanic sequence of the Quaternary Yellowstone plateau consists of rhyolites and basalts representing three volcanic cycles. The major events of each cycle were eruption of a voluminous ash-flow sheet and formation of a large collapse caldera. Lesser events of each cycle were eruption of precaldera and postcaldera rhyolitic lava flows and marginal basaltic lavas. The three major ash-flow sheets are named and designated in this report as formations within the Yellowstone Group. The lavas are assigned to newly named formations organized around the three ash-flow sheets of the Yellowstone Group to represent the volcanic cycles. Rocks of the first volcanic cycle comprise the precaldera Junction Butte Basalt and rhyolite of Broad Creek; the Huckleberry Ridge Tuff of the Yellowstone Group; and the postcaldera Lewis Canyon Rhyolite and basalt of The Narrows. Rocks of the second volcanic cycle do not crop out within Yellowstone National Park, and only the major unit, the Mesa Falls Tuff of the Yellowstone Group, is named here. The third volcanic cycle is represented by the precaldera Mount Jackson Rhyolite and Undine Falls Basalt; the Lava Creek Tuff of the Yellowstone Group; and the postcaldera Plateau Rhyolite and five post-Lava Creek basaltic sequences. Collapse to form the compound and resurgent Yellowstone caldera was related to eruption of the Lava Creek Tuff. The Plateau Rhyolite is divided into six members - the Mallard Lake, Upper Basin, Obsidian Creek, Central Plateau, Shoshone Lake Tuff, and Roaring Mountain Members; all but the Mallard Lake postdate resurgent doming of the caldera. The basalts are divided into the Swan Lake Flat Basalt, Falls River Basalt, basalt of Mariposa Lake, Madison River Basalt, and Osprey Basalt. Sediments are intercalated in the volcanic section below the Huckleberry Ridge and Mesa Falls Tuffs and within the Junction Butte Basalt, sediments and basalts of The Narrows, Undine Falls Basalt, Plateau Rhyolite, and Osprey Basalt.

  15. A preliminary study of older hot spring alteration in Sevenmile Hole, Grand Canyon of the Yellowstone River, Yellowstone Caldera, Wyoming

    USGS Publications Warehouse

    Larson, Peter B.; Phillips, Allison; John, David A.; Cosca, Michael A.; Pritchard, Chad; Andersen, Allen; Manion, Jennifer

    2009-01-01

    Erosion in the Grand Canyon of the Yellowstone River, Yellowstone Caldera (640 ka), Wyoming, has exposed a cross section of older hydrothermal alteration in the canyon walls. The altered outcrops of the post-collapse tuff of Sulphur Creek (480 ka) extend from the canyon rim to more than 300 m beneath it. The hydrothermal minerals are zoned, with an advanced argillic alteration consisting of an association of quartz (opal) + kaolinite ± alunite ± dickite, and an argillic or potassic alteration association with quartz + illite ± adularia. Disseminated fine-grained pyrite or marcasite is ubiquitous in both alteration types. These alteration associations are characteristic products of shallow volcanic epithermal environments. The contact between the two alteration types is about 100 m beneath the rim. By analogy to other active geothermal systems including active hydrothermal springs in the Yellowstone Caldera, the transition from kaolinite to illite occurred at temperatures in the range 150 to 170 °C. An 40Ar/39Ar age on alunite of 154,000 ± 16,000 years suggests that hydrothermal activity has been ongoing since at least that time. A northwest-trending linear array of extinct and active hot spring centers in the Sevenmile Hole area implies a deeper structural control for the upflowing hydrothermal fluids. We interpret this deeper structure to be the Yellowstone Caldera ring fault that is covered by the younger tuff of Sulphur Creek. The Sevenmile Hole altered area lies at the eastern end of a band of hydrothermal centers that may mark the buried extension of the Yellowstone Caldera ring fault across the northern part of the Caldera.

  16. The evolution of Yellowstone's magmatic system over the past 630 kyr: Insights from the crystal record

    NASA Astrophysics Data System (ADS)

    Stelten, M. E.

    2017-12-01

    The Yellowstone Plateau volcanic field in northwestern Wyoming is one of the world's largest, active silicic volcanic centers, and has produced three caldera-forming "super eruptions" over the past 2.1 Myr. As a result, the petrologic evolution of Yellowstone's magmatic system has been the focus of numerous studies over the past 60 years. Early studies at Yellowstone focused on characterizing whole-rock chemical and isotopic variations observed in magmas erupted over Yellowstone's lifetime. While these have provided important insights into the source of Yellowstone magmas and the processes controlling their compositional evolution though time, whole-rock studies are limited in their ability to identify the mechanisms and timescales of rhyolite generation. In contrast, much of the recent work at Yellowstone has focused on applying micro-analytical techniques to characterize the age and composition of phenocrysts hosted in Yellowstone rhyolites. These studies have greatly advanced our understanding of the magmatic system at Yellowstone and have provided crucial new insights into the mechanisms and timescales of rhyolite generation. In particular, recent work has focused on applying micro-analytical techniques to study the age and origin of the [1] three caldera-forming eruptions that produced the Huckleberry Ridge, Mesa Falls, Lava Creek tuffs and [2] post-Lava Creek tuff intracaldera rhyolites that compose the Plateau Rhyolite. As a result, a wealth of crystal-chemical data now exists for rhyolites erupted throughout Yellowstone's 2.1 Myr history. These data provide a unique opportunity to create a detailed reconstruction of Yellowstone's magmatic system through time. In this contribution, I integrate available age, chemical, and isotopic data for phenocrysts hosted in Yellowstone rhyolites to construct a model for the evolution of Yellowstone's magmatic system from the caldera-forming eruption of the Lava Creek tuff at ca. 0.63 Ma to the present day. In particular

  17. Uranium extremophily is an adaptive, rather than intrinsic, feature for extremely thermoacidophilic Metallosphaera species

    PubMed Central

    Mukherjee, Arpan; Wheaton, Garrett H.; Blum, Paul H.; Kelly, Robert M.

    2012-01-01

    Thermoacidophilic archaea are found in heavy metal-rich environments, and, in some cases, these microorganisms are causative agents of metal mobilization through cellular processes related to their bioenergetics. Given the nature of their habitats, these microorganisms must deal with the potentially toxic effect of heavy metals. Here, we show that two thermoacidophilic Metallosphaera species with nearly identical (99.99%) genomes differed significantly in their sensitivity and reactivity to uranium (U). Metallosphaera prunae, isolated from a smoldering heap on a uranium mine in Thüringen, Germany, could be viewed as a “spontaneous mutant” of Metallosphaera sedula, an isolate from Pisciarelli Solfatara near Naples. Metallosphaera prunae tolerated triuranium octaoxide (U3O8) and soluble uranium [U(VI)] to a much greater extent than M. sedula. Within 15 min following exposure to “U(VI) shock,” M. sedula, and not M. prunae, exhibited transcriptomic features associated with severe stress response. Furthermore, within 15 min post-U(VI) shock, M. prunae, and not M. sedula, showed evidence of substantial degradation of cellular RNA, suggesting that transcriptional and translational processes were aborted as a dynamic mechanism for resisting U toxicity; by 60 min post-U(VI) shock, RNA integrity in M. prunae recovered, and known modes for heavy metal resistance were activated. In addition, M. sedula rapidly oxidized solid U3O8 to soluble U(VI) for bioenergetic purposes, a chemolithoautotrophic feature not previously reported. M. prunae, however, did not solubilize solid U3O8 to any significant extent, thereby not exacerbating U(VI) toxicity. These results point to uranium extremophily as an adaptive, rather than intrinsic, feature for Metallosphaera species, driven by environmental factors. PMID:23010932

  18. Understanding the Yellowstone magmatic system using 3D geodynamic inverse models

    NASA Astrophysics Data System (ADS)

    Kaus, B. J. P.; Reuber, G. S.; Popov, A.; Baumann, T.

    2017-12-01

    The Yellowstone magmatic system is one of the largest magmatic systems on Earth. Recent seismic tomography suggest that two distinct magma chambers exist: a shallow, presumably felsic chamber and a deeper much larger, partially molten, chamber above the Moho. Why melt stalls at different depth levels above the Yellowstone plume, whereas dikes cross-cut the whole lithosphere in the nearby Snake River Plane is unclear. Partly this is caused by our incomplete understanding of lithospheric scale melt ascent processes from the upper mantle to the shallow crust, which requires better constraints on the mechanics and material properties of the lithosphere.Here, we employ lithospheric-scale 2D and 3D geodynamic models adapted to Yellowstone to better understand magmatic processes in active arcs. The models have a number of (uncertain) input parameters such as the temperature and viscosity structure of the lithosphere, geometry and melt fraction of the magmatic system, while the melt content and rock densities are obtained by consistent thermodynamic modelling of whole rock data of the Yellowstone stratigraphy. As all of these parameters affect the dynamics of the lithosphere, we use the simulations to derive testable model predictions such as gravity anomalies, surface deformation rates and lithospheric stresses and compare them with observations. We incorporated it within an inversion method and perform 3D geodynamic inverse models of the Yellowstone magmatic system. An adjoint based method is used to derive the key model parameters and the factors that affect the stress field around the Yellowstone plume, locations of enhanced diking and melt accumulations. Results suggest that the plume and the magma chambers are connected with each other and that magma chamber overpressure is required to explain the surface displacement in phases of high activity above the Yellowstone magmatic system.

  19. Pregnancy rates in central Yellowstone bison

    USGS Publications Warehouse

    Gogan, Peter J.; Russell, Robin E.; Olexa, Edward M.; Podruzny, Kevin M.

    2013-01-01

    Plains bison (Bison b. bison) centered on Yellowstone National Park are chronically infected with brucellosis (Brucella abortus) and culled along the park boundaries to reduce the probability of disease transmission to domestic livestock. We evaluated the relationship between pregnancy rates and age, dressed carcass weight, and serological status for brucellosis among bison culled from the central Yellowstone subpopulation during the winters of 1996–1997, 2001–2002, and 2002–2003. A model with only dressed carcass weight was the best predictor of pregnancy status for all ages with the odds of pregnancy increasing by 1.03 (95% CI = 1.02–1.04) for every 1-kg increase in weight. We found no effect of age or the serological status for brucellosis on pregnancy rates across age classes; however, we did find a positive association between age and pregnancy rates for bison ≥2 years old. Bison ≥2 years old had an overall pregnancy rate of 65% with markedly different rates in alternate ages for animals between 3 and 7 years old. Pregnancy rates were 0.50 (95% CI = 0.31–0.69) for brucellosis positive and 0.57 (95% CI = 0.34–0.78) for brucellosis negative 2- and 3-year-olds and 0.74 (95% CI = 0.60–0.85) in brucellosis positive and 0.69 (95% CI = 0.49–0.85) in brucellosis negative bison ≥4 years old. Only 1 of 21 bison <2 years old was pregnant. Our findings are important to accurately predict the effects of brucellosis on Yellowstone bison population dynamics. We review our results relative to other studies of Yellowstone bison that concluded serological status for brucellosis influences pregnancy rates.

  20. High-resolution aeromagnetic mapping of volcanic terrain, Yellowstone National Park

    USGS Publications Warehouse

    Finn, C.A.; Morgan, L.A.

    2002-01-01

    High-resolution aeromagnetic data acquired over Yellowstone National Park (YNP) show contrasting patterns reflecting differences in rock composition, types and degree of alteration, and crustal structures that mirror the variable geology of the Yellowstone Plateau. The older, Eocene, Absaroka Volcanic Supergroup, a series of mostly altered, andesitic volcanic and volcaniclastic rocks partially exposed in mountains on the eastern margin of YNP, produces high-amplitude, positive magnetic anomalies, strongly contrasting with the less magnetic, younger, latest Cenozoic, Yellowstone Plateau Group, primarily a series of fresh and variably altered rhyolitic rocks covering most of YNP. The Yellowstone caldera is the centerpiece of the Yellowstone Plateau; part of its boundary can be identified on the aeromagnetic map as a series of discontinuous, negative magnetic anomalies that reflect faults or zones along which extensive hydrothermal alteration is localized. The large-volume rhyolitic ignimbrite deposits of the 0.63-Ma Lava Creek Tuff and the 2.1-Ma Huckleberry Ridge Tuff, which are prominent lithologies peripheral to the Yellowstone caldera, produce insignificant magnetic signatures. A zone of moderate amplitude positive anomalies coincides with the mapped extent of several post-caldera rhyolitic lavas. Linear magnetic anomalies reflect the rectilinear fault systems characteristic of resurgent domes in the center of the caldera. Peripheral to the caldera, the high-resolution aeromagnetic map clearly delineates flow unit boundaries of pre- and post-caldera basalt flows, which occur stratigraphically below the post-caldera rhyolitic lavas and are not exposed extensively at the surface. All of the hot spring and geyser basins, such as Norris, Upper and Lower Geyser Basins, West Thumb, and Gibbon, are associated with negative magnetic anomalies, reflecting hydrothermal alteration that has destroyed the magnetic susceptibility of minerals in the volcanic rocks. Within

  1. Hydrothermal and tectonic activity in northern Yellowstone Lake, Wyoming

    USGS Publications Warehouse

    Johnson, S.Y.; Stephenson, W.J.; Morgan, L.A.; Shanks, Wayne C.; Pierce, K.L.

    2003-01-01

    Yellowstone National Park is the site of one of the world's largest calderas. The abundance of geothermal and tectonic activity in and around the caldera, including historic uplift and subsidence, makes it necessary to understand active geologic processes and their associated hazards. To that end, we here use an extensive grid of high-resolution seismic reflection profiles (???450 km) to document hydrothermal and tectonic features and deposits in northern Yellowstone Lake. Sublacustrine geothermal features in northern Yellowstone Lake include two of the largest known hydrothermal explosion craters, Mary Bay and Elliott's. Mary Bay explosion breccia is distributed uniformly around the crater, whereas Elliott's crater breccia has an asymmetric distribution and forms a distinctive, ???2-km-long, hummocky lobe on the lake floor. Hydrothermal vents and low-relief domes are abundant on the lake floor; their greatest abundance is in and near explosion craters and along linear fissures. Domed areas on the lake floor that are relatively unbreached (by vents) are considered the most likely sites of future large hydrothermal explosions. Four submerged shoreline terraces along the margins of northern Yellowstone Lake add to the Holocene record or postglacial lake-level fluctuations attributed to "heavy breathing" of the Yellowstone magma reservoir and associated geothermal system. The Lake Hotel fault cuts through northwestern Yellowstone Lake and represents part of a 25-km-long distributed extensional deformation zone. Three postglacial ruptures indicate a slip rate of ???0.27 to 0.34 mm/yr. The largest (3.0 m slip) and most recent event occurred in the past ???2100 yr. Although high heat flow in the crust limits the rupture area of this fault zone, future earthquakes of magnitude ???5.3 to 6.5 are possible. Earthquakes and hydrothermal explosions have probably triggered landslides, common features around the lake margins. Few high-resolution seismic reflection surveys have

  2. Hot Spot at Yellowstone

    ERIC Educational Resources Information Center

    Dress, Abby

    2005-01-01

    Within this huge national park (over two million acres spread across Wyoming, Montana, and Idaho) are steaming geysers, hot springs, bubbling mudpots, and fumaroles, or steam vents. Drives on the main roads of Yellowstone take tourists through the major hot attractions, which also include Norris Geyser Basin, Upper and Lower Geyser Basin, West…

  3. Mushy Magma beneath Yellowstone

    NASA Astrophysics Data System (ADS)

    Chu, R.; Helmberger, D. V.; Sun, D.; Jackson, J. M.; Zhu, L.

    2009-12-01

    A recent prospective on the Yellowstone Caldera discounts its explosive potential based on inferences from tomographic studies on regional earthquake data which suggests a high degree of crystallization of the underlying magma body. In this study, we analyzed P-wave receiver functions recorded by broadband stations above the caldera from 100 teleseismic earthquakes between January and November 2008. After applying a number of waveform modeling tools, we obtained much lower seismic velocities than previous estimates, 2.3 km/sec (Vp) and 1.1 km/sec (Vs), with a thickness of 3.6 km in the upper crust. This shallow low velocity zone is severe enough to cause difficulties with seismic tool applications. In particular, seismologists expect teleseismic P-waves to arrive with motions up and away or down and back. Many of the observations recorded by the Yellowstone Intermountain Seismic Array, however, violate this assumption. We show that many of the first P-wave arrivals observed at seismic stations on the edge of the caldera do not travel through the magma body but have taken longer but faster paths around the edge or wrap-around phases. Three stations near the trailing edge have reversal radial-component motions, while stations near the leading edge do not. Adding our constraints on geometry, we conclude that this relatively shallow magma body has a volume of over 4,300 km3. We estimate the magma body by assuming a fluid-saturated porous material consisting of granite and a mixture of rhyolite melt and supercritical water and CO2 at temperatures of 800 oC and pressure at 5 km (0.1 GPa).Theoretical calculations of seismic wave speed suggests that the magma body beneath the Yellowstone Caldera has a porosity of 32% filled with 92% rhyolite melt and 8% water-CO2 by volume.

  4. Wolverine in Greater Yellowstone

    Treesearch

    Kerry Murphy; Jason Wilmot; Jeff Copeland; Dan Tyers; John Squires

    2011-01-01

    The wolverine is one of the least studied carnivores in North America, particularly in the contiguous United States where it occurs at the southern extent of its range. This project documented the distribution of wolverines in the eastern portion of Yellowstone National Park and adjoining areas of national forest and their population characteristics, habitat...

  5. Conservation of the Yellowstone grizzly bear

    USGS Publications Warehouse

    Mattson, David J.; Reid, Matthew M.

    1991-01-01

    We review literature relevant to the conservation of Yellowstone's grizzly bear population and appraise the bear's long-term viability. We conclude that the population is isolated and vulnerable to epidemic perturbation and that the carrying capacity of the habitat is likely to shift downward under conditions of climate change. Viability analyses based on the assumption that future habitats will closely resemble those existing at present have limited applicability; more information is needed on the autecology of important bear foods and on the implications of landscape-scale changes for bear population dynamics. Optimism over prospects of long-term persistence for Yellowstone's grizzly bears does not seem to be warranted and management of this population should be conservative and not unduly swayed on short-term positive trends.

  6. Magma beneath Yellowstone National Park

    USGS Publications Warehouse

    Eaton, G.P.; Christiansen, R.L.; Iyer, H.M.; Pitt, A.M.; Mabey, D.R.; Blank, H.R.; Zietz, I.; Gettings, M.E.

    1975-01-01

    The Yellowstone plateau volcanic field is less than 2 million years old, lies in a region of intense tectonic and hydrothermal activity, and probably has the potential for further volcanic activity. The youngest of three volcanic cycles in the field climaxed 600,000 years ago with a voluminous ashflow eruption and the collapse of two contiguous cauldron blocks. Doming 150,000 years ago, followed by voluminous rhyolitic extrusions as recently as 70,000 years ago, and high convective heat flow at present indicate that the latest phase of volcanism may represent a new magmatic insurgence. These observations, coupled with (i) localized postglacial arcuate faulting beyond the northeast margin of the Yellowstone caldera, (ii) a major gravity low with steep bounding gradients and an amplitude regionally atypical for the elevation of the plateau, (iii) an aeromagnetic low reflecting extensive hydrothermal alteration and possibly indicating the presence of shallow material above its Curie temperature, (iv) only minor shallow seismicity within the caldera (in contrast to a high level of activity in some areas immediately outside), (v) attenuation and change of character of seismic waves crossing the caldera area, and (vi) a strong azimuthal pattern of teleseismic P-wave delays, strongly suggest that a body composed at least partly of magma underlies the region of the rhyolite plateau, including the Tertiary volcanics immediately to its northeast. The Yellowstone field represents the active end of a system of similar volcanic foci that has migrated progressively northeastward for 15 million years along the trace of the eastern Snake River Plain (8). Regional aeromagnetic patterns suggest that this course was guided by the structure of the Precambrian basement. If, as suggested by several investigators (24), the Yellowstone magma body marks a contemporary deep mantle plume, this plume, in its motion relative to the North American plate, would appear to be "navigating" along a

  7. Recent crustal subsidence at Yellowstone Caldera, Wyoming

    USGS Publications Warehouse

    Dzurisin, D.; Savage, J.C.; Fournier, R.O.

    1990-01-01

    Following a period of net uplift at an average rate of 15??1 mm/year from 1923 to 1984, the east-central floor of Yellowstone Caldera stopped rising during 1984-1985 and then subsided 25??7 mm during 1985-1986 and an additional 35??7 mm during 1986-1987. The average horizontal strain rates in the northeast part of the caldera for the period from 1984 to 1987 were: {Mathematical expression}1 = 0.10 ?? 0.09 ??strain/year oriented N33?? E??9?? and {Mathematical expression}2 = 0.20 ?? 0.09 ??strain/year oriented N57?? W??9?? (extension reckoned positive). A best-fit elastic model of the 1985-1987 vertical and horizontal displacements in the eastern part of the caldera suggests deflation of a horizontal tabular body located 10??5 km beneath Le Hardys Rapids, i.e., within a deep hydrothermal system or within an underlying body of partly molten rhyolite. Two end-member models each explain most aspects of historical unrest at Yellowstone, including the recent reversal from uplift to subsidence. Both involve crystallization of an amount of rhyolitic magma that is compatible with the thermal energy requirements of Yellowstone's vigorous hydrothermal system. In the first model, injection of basalt near the base of the rhyolitic system is the primary cause of uplift. Higher in the magmatic system, rhyolite crystallizes and releases all of its magmatic volatiles into the shallow hydrothermal system. Uplift stops and subsidence starts whenever the supply rate of basalt is less than the subsidence rate produced by crystallization of rhyolite and associated fluid loss. In the second model, uplift is caused primarily by pressurization of the deep hydrothermal system by magmatic gas and brine that are released during crystallization of rhyolite and them trapped at lithostatic pressure beneath an impermeable self-sealed zone. Subsidence occurs during episodic hydrofracturing and injection of pore fluid from the deep lithostatic-pressure zone into a shallow hydrostatic-pressure zone

  8. Characterization of the highly branched glycogen from the thermoacidophilic red microalga Galdieria sulphuraria and comparison with other glycogens.

    PubMed

    Martinez-Garcia, Marta; Stuart, Marc C A; van der Maarel, Marc J E C

    2016-08-01

    The thermoacidophilic red microalga Galdieria sulphuraria synthesizes glycogen when growing under heterotrophic conditions. Structural characterization revealed that G. sulphuraria glycogen is the most highly branched glycogen described to date, with 18% of α-(1→6) linkages. Moreover, it differs from other glycogens because it is composed of short chains only and has a substantially smaller molecular weight and particle size. The physiological role of this highly branched glycogen in G. sulphuraria is discussed. Copyright © 2016 Elsevier B.V. All rights reserved.

  9. A field trip guide to the petrology of Quaternary volcanism on the Yellowstone Plateau

    USGS Publications Warehouse

    Vazquez, Jorge A.; Stelten, Mark; Bindeman, Ilya N.; Cooper, Kari

    2017-12-19

    The Yellowstone Plateau is one of the largest manifestations of silicic volcanism on Earth, and marks the youngest focus of magmatism associated with the Yellowstone Hot Spot. The earliest products of Yellowstone Hot Spot volcanism are from ~17 million years ago, but may be as old as ~32 Ma, and include contemporaneous eruption of voluminous mafic and silicic magmas, which are mostly located in the region of northwestern Nevada and southeastern Oregon. Since 17 Ma, the main locus of Yellowstone Hot Spot volcanism has migrated northeastward producing numerous silicic caldera complexes that generally remain active for ~2–4 million years, with the present-day focus being the Yellowstone Plateau. Northeastward migration of volcanism associated with the Yellowstone Hot Spot resulted in the formation of the Snake River Plain, a low relief physiographic feature extending ~750 kilometers from northern Nevada to eastern Idaho. Most of the silicic volcanic centers along the Snake River Plain have been inundated by younger basalt volcanism, but many of their ignimbrites and lava flows are exposed in the extended regions at the margins of the Snake River Plain. 

  10. Myrmecophagy by Yellowstone grizzly bears

    USGS Publications Warehouse

    Mattson, D.J.

    2001-01-01

    I used data collected during a study of radio-marked grizzly bears (Ursus arctos horribilis) in the Yellowstone region from 1977 to 1992 to investigate myrmecophagy by this population. Although generally not an important source of energy for the bears (averaging 8 mm long) nested in logs over small ants (6 mm long) nested under stones. Optimal conditions for consumption of ants occurred on the warmest sites with ample substrate suitable for ant nests. For ants in mounds, this occurred at low elevations at non-forested sites. For ants in logs, this occurred at low elevations or on southerly aspects where there was abundant, large-diameter, well-decomposed woody debris under an open forest canopy. Grizzly bears selected moderately decomposed logs 4a??5 dm in diameter at midpoint. Ants will likely become a more important food for Yellowstone's grizzly bears as currently important foods decline, owing to disease and warming of the regional climate.

  11. Prodigious degassing of a billion years of accumulated radiogenic helium at Yellowstone

    USGS Publications Warehouse

    Lowenstern, Jacob B.; Evans, William C.; Bergfeld, D.; Hunt, Andrew G.

    2014-01-01

    Helium is used as a critical tracer throughout the Earth sciences, where its relatively simple isotopic systematics is used to trace degassing from the mantle, to date groundwater and to time the rise of continents1. The hydrothermal system at Yellowstone National Park is famous for its high helium-3/helium-4 isotope ratio, commonly cited as evidence for a deep mantle source for the Yellowstone hotspot2. However, much of the helium emitted from this region is actually radiogenic helium-4 produced within the crust by α-decay of uranium and thorium. Here we show, by combining gas emission rates with chemistry and isotopic analyses, that crustal helium-4 emission rates from Yellowstone exceed (by orders of magnitude) any conceivable rate of generation within the crust. It seems that helium has accumulated for (at least) many hundreds of millions of years in Archaean (more than 2.5 billion years old) cratonic rocks beneath Yellowstone, only to be liberated over the past two million years by intense crustal metamorphism induced by the Yellowstone hotspot. Our results demonstrate the extremes in variability of crustal helium efflux on geologic timescales and imply crustal-scale open-system behaviour of helium in tectonically and magmatically active regions.

  12. Draft Genome Sequence of the Novel Thermoacidophilic Archaeon Acidianus copahuensis Strain ALE1, Isolated from the Copahue Volcanic Area in Neuquén, Argentina

    PubMed Central

    Rascovan, Nicolás; Castro, Camila; Revale, Santiago; Giaveno, M. Alejandra; Vazquez, Martín; Donati, Edgardo R.

    2014-01-01

    Acidianus copahuensis is a recently characterized thermoacidophilic archaeon isolated from the Copahue volcanic area in Argentina. Here, we present its draft genome sequence, in which we found genes involved in key metabolic pathways for developing under Copahue’s extreme environmental conditions, such as sulfur and iron oxidation, carbon fixation, and metal tolerance. PMID:24812211

  13. Dynamics of the Yellowstone hydrothermal system

    USGS Publications Warehouse

    Hurwitz, Shaul; Lowenstern, Jacob B.

    2014-01-01

    The Yellowstone Plateau Volcanic Field is characterized by extensive seismicity, episodes of uplift and subsidence, and a hydrothermal system that comprises more than 10,000 thermal features, including geysers, fumaroles, mud pots, thermal springs, and hydrothermal explosion craters. The diverse chemical and isotopic compositions of waters and gases derive from mantle, crustal, and meteoric sources and extensive water-gas-rock interaction at variable pressures and temperatures. The thermal features are host to all domains of life that utilize diverse inorganic sources of energy for metabolism. The unique and exceptional features of the hydrothermal system have attracted numerous researchers to Yellowstone beginning with the Washburn and Hayden expeditions in the 1870s. Since a seminal review published a quarter of a century ago, research in many fields has greatly advanced our understanding of the many coupled processes operating in and on the hydrothermal system. Specific advances include more refined geophysical images of the magmatic system, better constraints on the time scale of magmatic processes, characterization of fluid sources and water-rock interactions, quantitative estimates of heat and magmatic volatile fluxes, discovering and quantifying the role of thermophile microorganisms in the geochemical cycle, defining the chronology of hydrothermal explosions and their relation to glacial cycles, defining possible links between hydrothermal activity, deformation, and seismicity; quantifying geyser dynamics; and the discovery of extensive hydrothermal activity in Yellowstone Lake. Discussion of these many advances forms the basis of this review.

  14. Yellowstone and the biology of time: Photographs across a century

    USGS Publications Warehouse

    Meagher, Mary; Houston, Douglas B.

    1999-01-01

    Established in 1872, Yellowstone National Park is the oldest and one of the largest national parks in the world. In this remarkable book, scientists Mary Meagher and Douglas B. Houston present 100 sets of photographs that compare the Yellowstone of old with the park of today.Most of the photo sets include three pictures-not the usual two-with many of the original views dating back to the 1870s and 1880s. From the same photo points used by early photographers, Meagher and Houston rephotographed the scenes in the 1970s, and then, following the great fires of 1988, again in the 1990s. The result is an illuminating record of Yellowstone’s dynamic ecosystem and its changes over time.Through close analysis of the photos and reference to the vast amount of available data, Meagher and Houston describe changes in vegetation, growth of wildlife populations, the effect of beaver occupancy on wetland areas, and geothermal and elevational shifts. At the same time they point out the extent to which many sites have not changed-despite important switches in park policy and an increase in human activity.Yellowstone National Park has long been the focus of major ecological debates. Should managers allow wildfires to burn? Should the elk and bison populations be controlled? Are too many people visiting the park? Yellowstone And The Biology Of Time offers a wealth of information to help us answer these questions. A visual treasure, this book will be of value to scientists from various disciplines as well as to the many people who care about Yellowstone and other protected wilderness areas around the world.

  15. Coefficients of productivity for Yellowstone's grizzly bear habitat

    USGS Publications Warehouse

    Mattson, David John; Barber, Kim; Maw, Ralene; Renkin, Roy

    2004-01-01

    This report describes methods for calculating coefficients used to depict habitat productivity for grizzly bears in the Yellowstone ecosystem. Calculations based on these coefficients are used in the Yellowstone Grizzly Bear Cumulative Effects Model to map the distribution of habitat productivity and account for the impacts of human facilities. The coefficients of habitat productivity incorporate detailed information that was collected over a 20-year period (1977-96) on the foraging behavior of Yellowstone's bears and include records of what bears were feeding on, when and where they fed, the extent of that feeding activity, and relative measures of the quantity consumed. The coefficients also incorporate information, collected primarily from 1986 to 1992, on the nutrient content of foods that were consumed, their digestibility, characteristic bite sizes, and the energy required to extract and handle each food. Coefficients were calculated for different time periods and different habitat types, specific to different parts of the Yellowstone ecosystem. Stratifications included four seasons of bear activity (spring, estrus, early hyperphagia, late hyperphagia), years when ungulate carrion and whitebark pine seed crops were abundant versus not, areas adjacent to (< 100 m) or far away from forest/nonforest edges, and areas inside or outside of ungulate winter ranges. Densities of bear activity in each region, habitat type, and time period were incorporated into calculations, controlling for the effects of proximity to human facilities. The coefficients described in this report and associated estimates of grizzly bear habitat productivity are unique among many efforts to model the conditions of bear habitat because calculations include information on energetics derived from the observed behavior of radio-marked bears.

  16. Demography of the Yellowstone grizzly bears

    USGS Publications Warehouse

    Pease, C.M.; Mattson, D.J.

    1999-01-01

    We undertook a demographic analysis of the Yellowstone grizzly bears (Ursus arctos) to identify critical environmental factors controlling grizzly bear vital rates, and thereby to help evaluate the effectiveness of past management and to identify future conservation issues. We concluded that, within the limits of uncertainty implied by the available data and our methods of data analysis, the size of the Yellowstone grizzly bear population changed little from 1975 to 1995. We found that grizzly bear mortality rates are about double in years when the whitebark pine crop fails than in mast years, and that the population probably declines when the crop fails and increases in mast years. Our model suggests that natural variation in whitebark pine crop size over the last two decades explains more of the perceived fluctuations in Yellowstone grizzly population size than do other variables. Our analysis used demographic data from 202 radio-telemetered bears followed between 1975 and 1992 and accounted for whitebark pine (Pinus albicaulis) crop failures during 1993-1995. We used a maximum likelihood method to estimate demographic parameters and used the Akaike Information Criteria to judge the significance of various independent variables. We identified no independent variables correlated with grizzly bear fecundity. In order of importance, we found that grizzly bear mortality rates are correlated with season, whitebark pine crop size (mast vs. nonmast year), sex, management-trapping status (never management-trapped vs. management-trapped once or more), and age. The mortality rate of bears that were management-trapped at least once was almost double that of bears that were never management-trapped, implying a source/sink (i.e., never management-trapped/management-trapped) structure. The rate at which bears move between the source and sink, estimated as the management-trapping rate (h), is critical to estimating the finite rate of increase, I>I?. We quantified h by

  17. Hydrogen and bioenergetics in the Yellowstone geothermal ecosystem

    PubMed Central

    Spear, John R.; Walker, Jeffrey J.; McCollom, Thomas M.; Pace, Norman R.

    2005-01-01

    The geochemical energy budgets for high-temperature microbial ecosystems such as occur at Yellowstone National Park have been unclear. To address the relative contributions of different geochemistries to the energy demands of these ecosystems, we draw together three lines of inference. We studied the phylogenetic compositions of high-temperature (>70°C) communities in Yellowstone hot springs with distinct chemistries, conducted parallel chemical analyses, and carried out thermodynamic modeling. Results of extensive molecular analyses, taken with previous results, show that most microbial biomass in these systems, as reflected by rRNA gene abundance, is comprised of organisms of the kinds that derive energy for primary productivity from the oxidation of molecular hydrogen, H2. The apparent dominance by H2-metabolizing organisms indicates that H2 is the main source of energy for primary production in the Yellowstone high-temperature ecosystem. Hydrogen concentrations in the hot springs were measured and found to range up to >300 nM, consistent with this hypothesis. Thermodynamic modeling with environmental concentrations of potential energy sources also is consistent with the proposed microaerophilic, hydrogen-based energy economy for this geothermal ecosystem, even in the presence of high concentrations of sulfide. PMID:15671178

  18. Volcanic calderas delineate biogeographic provinces among Yellowstone thermophiles.

    PubMed

    Takacs-Vesbach, Cristina; Mitchell, Kendra; Jackson-Weaver, Olan; Reysenbach, Anna-Louise

    2008-07-01

    It has been suggested that the distribution of microorganisms should be cosmopolitan because of their enormous capacity for dispersal. However, recent studies have revealed that geographically isolated microbial populations do exist. Geographic distance as a barrier to dispersal is most often invoked to explain these distributions. Here we show that unique and diverse sequences of the bacterial genus Sulfurihydrogenibium exist in Yellowstone thermal springs, indicating that these sites are geographically isolated. Although there was no correlation with geographic distance or the associated geochemistry of the springs, there was a strong historical signal. We found that the Yellowstone calderas, remnants of prehistoric volcanic eruptions, delineate biogeographical provinces for the Sulfurihydrogenibium within Yellowstone (chi(2): 9.7, P = 0.002). The pattern of distribution that we have detected suggests that major geological events in the past 2 million years explain more of the variation in sequence diversity in this system than do contemporary factors such as habitat or geographic distance. These findings highlight the importance of historical legacies in determining contemporary microbial distributions and suggest that the same factors that determine the biogeography of macroorganisms are also evident among bacteria.

  19. Lower-mantle plume beneath the Yellowstone hotspot revealed by core waves

    NASA Astrophysics Data System (ADS)

    Nelson, Peter L.; Grand, Stephen P.

    2018-04-01

    The Yellowstone hotspot, located in North America, is an intraplate source of magmatism the cause of which is hotly debated. Some argue that a deep mantle plume sourced at the base of the mantle supplies the heat beneath Yellowstone, whereas others claim shallower subduction or lithospheric-related processes can explain the anomalous magmatism. Here we present a shear wave tomography model for the deep mantle beneath the western United States that was made using the travel times of core waves recorded by the dense USArray seismic network. The model reveals a single narrow, cylindrically shaped slow anomaly, approximately 350 km in diameter that we interpret as a whole-mantle plume. The anomaly is tilted to the northeast and extends from the core-mantle boundary to the surficial position of the Yellowstone hotspot. The structure gradually decreases in strength from the deepest mantle towards the surface and if it is purely a thermal anomaly this implies an initial excess temperature of 650 to 850 °C. Our results strongly support a deep origin for the Yellowstone hotspot, and also provide evidence for the existence of thin thermal mantle plumes that are currently beyond the resolution of global tomography models.

  20. 76 FR 31009 - BNSF Railway Company-Trackage Rights Exemption-Yellowstone Valley Railroad, Inc.

    Federal Register 2010, 2011, 2012, 2013, 2014

    2011-05-27

    ... DEPARTMENT OF TRANSPORTATION Surface Transportation Board [Docket No. FD 35503] BNSF Railway Company--Trackage Rights Exemption--Yellowstone Valley Railroad, Inc. Yellowstone Valley Railroad, Inc... local and overhead trackage rights to BNSF Railway Company (BNSF) over a rail line that it leases from...

  1. Degradation of phenolic compounds by the lignocellulose deconstructing thermoacidophilic bacterium Alicyclobacillus Acidocaldarius

    DOE PAGES

    Aston, John E.; Apel, William A.; Lee, Brady D.; ...

    2015-11-05

    Alicyclobacillus acidocaldarius, a thermoacidophilic bacterium, has a repertoire of thermo- and acid-stable enzymes that deconstruct lignocellulosic compounds. The work presented here describes the ability of A. acidocaldarius to reduce the concentration of the phenolic compounds: phenol, ferulic acid, ρ-coumaric acid and sinapinic acid during growth conditions. The extent and rate of the removal of these compounds were significantly increased by the presence of micro-molar copper concentrations, suggesting activity by copper oxidases that have been identified in the genome of A. acidocaldarius. Substrate removal kinetics was first order for phenol, ferulic acid, ρ-coumaric acid and sinapinic acid in the presence ofmore » 50 μM copper sulfate. In addition, laccase enzyme assays of cellular protein fractions suggested significant activity on a lignin analog between the temperatures of 45 and 90 °C. As a result, this work shows the potential for A. acidocaldarius to degrade phenolic compounds, demonstrating potential relevance to biofuel production and other industrial processes.« less

  2. Glacial and Quaternary geology of the northern Yellowstone area, Montana and Wyoming

    USGS Publications Warehouse

    Pierce, Kenneth L.; Licciardi, Joseph M.; Krause, Teresa R.; Whitlock, Cathy

    2014-01-01

    This field guide focuses on the glacial geology and paleoecology beginning in the Paradise Valley and progressing southward into northern Yellowstone National Park. During the last (Pinedale) glaciation, the northern Yellowstone outlet glacier flowed out of Yellowstone Park and down the Yellowstone River Valley into the Paradise Valley. The field trip will traverse the following Pinedale glacial sequence: (1) deposition of the Eightmile terminal moraines and outwash 16.5 ± 1.4 10Be ka in the Paradise Valley; (2) glacial recession of ~8 km and deposition of the Chico moraines and outwash 16.1 ± 1.7 10Be ka; (3) glacial recession of 45 km to near the northern Yellowstone boundary and moraine deposition during the Deckard Flats readjustment 14.2 ± 1.2 10Be ka; and (4) glacial recession of ~37 km and deposition of the Junction Butte moraines 15.2 ± 1.3 10Be ka (this age is a little too old based on the stratigraphic sequence). Yellowstone's northern range of sagebrush-grasslands and bison, elk, wolf, and bear inhabitants is founded on glacial moraines, sub-glacial till, and outwash deposited during the last glaciation. Floods released from glacially dammed lakes and a landslide-dammed lake punctuate this record. The glacial geologic reconstruction was evaluated by calculation of basal shear stress, and yielded the following values for flow pattern in plan view: strongly converging—1.21 ± 0.12 bars (n = 15); nearly uniform—1.04 ± 0.16 bars (n = 11); and strongly diverging—0.84 ± 0.14 bars (n = 16). Reconstructed mass balance yielded accumulation and ablation each of ~3 km3/yr, with glacial movement near the equilibrium line altitude dominated by basal sliding. Pollen and charcoal records from three lakes in northern Yellowstone provide information on the postglacial vegetation and fire history. Following glacial retreat, sparsely vegetated landscapes were colonized first by spruce parkland and then by closed subalpine forests. Regional fire activity

  3. Heat flow in vapor dominated areas of the Yellowstone Plateau volcanic field: implications for the thermal budget of the Yellowstone Caldera

    USGS Publications Warehouse

    Hurwitz, Shaul; Harris, Robert; Werner, Cynthia Anne; Murphy, Fred

    2012-01-01

    Characterizing the vigor of magmatic activity in Yellowstone requires knowledge of the mechanisms and rates of heat transport between magma and the ground surface. We present results from a heat flow study in two vapor dominated, acid-sulfate thermal areas in the Yellowstone Caldera, the 0.11 km2 Obsidian Pool Thermal Area (OPTA) and the 0.25 km2 Solfatara Plateau Thermal Area (SPTA). Conductive heat flux through a low permeability layer capping large vapor reservoirs is calculated from soil temperature measurements at >600 locations and from laboratory measurements of soil properties. The conductive heat output is 3.6 ± 0.4 MW and 7.5 ± 0.4 MW from the OPTA and the SPTA, respectively. The advective heat output from soils is 1.3 ± 0.3 MW and 1.2 ± 0.3 MW from the OPTA and the SPTA, respectively and the heat output from thermal pools in the OPTA is 6.8 ± 1.4 MW. These estimates result in a total heat output of 11.8 ± 1.4 MW and 8.8 ± 0.4 MW from OPTA and SPTA, respectively. Focused zones of high heat flux in both thermal areas are roughly aligned with regional faults suggesting that faults in both areas serve as conduits for the rising acid vapor. Extrapolation of the average heat flux from the OPTA (103 ± 2 W·m−2) and SPTA (35 ± 3 W·m−2) to the ~35 km2 of vapor dominated areas in Yellowstone yields 3.6 and 1.2 GW, respectively, which is less than the total heat output transported by steam from the Yellowstone Caldera as estimated by the chloride inventory method (4.0 to 8.0 GW).

  4. Transcriptomes of the Extremely Thermoacidophilic Archaeon Metallosphaera sedula Exposed to Metal "Shock" Reveal Generic and Specific Metal Responses.

    PubMed

    Wheaton, Garrett H; Mukherjee, Arpan; Kelly, Robert M

    2016-08-01

    The extremely thermoacidophilic archaeon Metallosphaera sedula mobilizes metals by novel membrane-associated oxidase clusters and, consequently, requires metal resistance strategies. This issue was examined by "shocking" M. sedula with representative metals (Co(2+), Cu(2+), Ni(2+), UO2 (2+), Zn(2+)) at inhibitory and subinhibitory levels. Collectively, one-quarter of the genome (554 open reading frames [ORFs]) responded to inhibitory levels, and two-thirds (354) of the ORFs were responsive to a single metal. Cu(2+) (259 ORFs, 106 Cu(2+)-specific ORFs) and Zn(2+) (262 ORFs, 131 Zn(2+)-specific ORFs) triggered the largest responses, followed by UO2 (2+) (187 ORFs, 91 UO2 (2+)-specific ORFs), Ni(2+) (93 ORFs, 25 Ni(2+)-specific ORFs), and Co(2+) (61 ORFs, 1 Co(2+)-specific ORF). While one-third of the metal-responsive ORFs are annotated as encoding hypothetical proteins, metal challenge also impacted ORFs responsible for identifiable processes related to the cell cycle, DNA repair, and oxidative stress. Surprisingly, there were only 30 ORFs that responded to at least four metals, and 10 of these responded to all five metals. This core transcriptome indicated induction of Fe-S cluster assembly (Msed_1656-Msed_1657), tungsten/molybdenum transport (Msed_1780-Msed_1781), and decreased central metabolism. Not surprisingly, a metal-translocating P-type ATPase (Msed_0490) associated with a copper resistance system (Cop) was upregulated in response to Cu(2+) (6-fold) but also in response to UO2 (2+) (4-fold) and Zn(2+) (9-fold). Cu(2+) challenge uniquely induced assimilatory sulfur metabolism for cysteine biosynthesis, suggesting a role for this amino acid in Cu(2+) resistance or issues in sulfur metabolism. The results indicate that M. sedula employs a range of physiological and biochemical responses to metal challenge, many of which are specific to a single metal and involve proteins with yet unassigned or definitive functions. The mechanisms by which extremely

  5. On the origin of brucellosis in bison of Yellowstone National Park: a review

    USGS Publications Warehouse

    Meagher, Mary; Meyer, Margaret E.

    1994-01-01

    Brucellosis caused by Brucella abortus occurs in the free-ranging bison (Bison bison) of Yellowstone and Wood Buffalo National Parks and in elk (Cervus elaphus) of the Greater Yellowstone Area. As a result of nationwide bovine brucellosis eradication programs, states and provinces proximate to the national parks are considered free of bovine brucellosis. Thus, increased attention has been focused on the wildlife within these areas as potential reservoirs for transmission to cattle. Because the national parks are mandated as natural areas, the question has been raised as to whether Brucella abortus is endogenous or exogenous to bison, particularly for Yellowstone National Park. We synthesized diverse lines of inquiry, including the evolutionary history of both bison and Brucella, wild animals as Brucella hosts, biochemical and genetic information, behavioral characteristics of host and organism, and area history to develop an evaluation of the question for the National Park Service. All lines of inquiry indicated that the organism was introduced to North America with cattle, and that the introduction into the Yellowstone bison probably was directly from cattle shortly before 1917. Fistulous withers of horses was a less likely possibility. Elk on winter feedgrounds south of Yellowstone National Park apparently acquired the disease directly from cattle. Bison presently using Grand Teton National Park probably acquired brucellosis from feedground elk.

  6. Biology, status, and management of the yellowstone cutthroat trout

    USGS Publications Warehouse

    Gresswell, R.E.

    2011-01-01

    Yellowstone cutthroat trout Oncorhynchus clarkii bouvieri were historically distributed in the Yellowstone River drainage (Montana and Wyoming) and the Snake River drainage (Wyoming, Idaho, Utah, Nevada, and probably Washington). Individual populations evolved distinct life history characteristics in response to the diverse environments in which they were isolated after the last glaciation. Anthropogenic activities have resulted in a substantial decline (42% of the historical range is currently occupied; 28% is occupied by core [genetically unaltered] populations), but the number of extant populations, especially in headwater streams, has precluded listing of this taxon under the Endangered Species Act. Primary threats to persistence of Yellowstone cutthroat trout include (1) invasive species, resulting in hybridization, predation, disease, and interspecific competition; (2) habitat degradation from human activities such as agricultural practices, water diversions, grazing, dam construction, mineral extraction, grazing, timber harvest, and road construction; and (3) climate change, including an escalating risk of drought, wildfire, winter flooding, and rising temperatures. Extirpation of individual populations or assemblages has led to increasing isolation and fragmentation of remaining groups, which in turn raises susceptibility to the demographic influences of disturbance (both human and stochastic) and genetic factors. Primary conservation strategies include (1) preventing risks associated with invasive species by isolating populations of Yellowstone cutthroat trout and (2) connecting occupied habitats (where possible) to preserve metapopulation function and the expression of multiple life histories. Because persistence of isolated populations may be greater in the short term, current management is focused on isolating individual populations and restoring habitats; however, this approach implies that humans will act as dispersal agents if a population is

  7. Nutritional condition of Northern Yellowstone Elk

    USGS Publications Warehouse

    Cook, R.C.; Cook, J.G.; Mech, L.D.

    2004-01-01

    Ultrasonography and body condition scoring was used to estimate nutritional condition of northern Yellowstone elk in late winter. Probability of pregnancy was related to body fat, and lactating cows had 50% less fat than non-lactating cows. For mild to normal winters, most of the elk were in good condition.

  8. Understanding the physics of the Yellowstone magmatic system with geodynamic inverse modelling

    NASA Astrophysics Data System (ADS)

    Reuber, Georg; Kaus, Boris

    2017-04-01

    The Yellowstone magmatic system is one of the largest magmatic systems on Earth. Thus, it is important to understand the geodynamic processes that drive this very complex system on a larger scale ranging from the mantle plume up to the shallow magma chamber in the upper crust. Recent geophysical results suggest that two distinct magma chambers exist: a shallow, presumably felsic chamber and a deeper and partially molten chamber above the Moho [1]. Why melt stalls at different depth levels above the Yellowstone plume, whereas dikes cross-cut the whole lithosphere in the nearby Snake River Plane is puzzling. Therefore, we employ lithospheric-scale 2D and 3D geodynamic models to test the influence of different model parameters, such as the geometry of the magma chamber, the melt fraction, the rheological flow law, the densities and the thermal structure on their influence on the dynamics of the lithosphere. The melt content and the rock densities are obtained by consistent thermodynamic modelling of whole rock data of the Yellowstone stratigraphy. We present derivations in the stress field around the Yellowstone plume, diking areas and different melt accumulations. Our model predictions can be tested with available geophysical data (uplift rates, melt fractions, stress states, seismicity). By framing it in an inverse modelling approach we can constrain which parameters (melt fractions, viscosities, geometries) are consistent with the data and which are not. [1] Huang, Hsin-Hua, et al. "The Yellowstone magmatic system from the mantle plume to the upper crust." Science 348.6236 (2015): 773-776.

  9. Anomalous mantle transition zone beneath the Yellowstone hotspot track

    NASA Astrophysics Data System (ADS)

    Zhou, Ying

    2018-06-01

    The origin of the Yellowstone and Snake River Plain volcanism has been strongly debated. The mantle plume model successfully explains the age-progressive volcanic track, but a deep plume structure has been absent in seismic imaging. Here I apply diffractional tomography to receiver functions recorded at USArray stations to map high-resolution topography of mantle transition-zone discontinuities. The images reveal a trail of anomalies that closely follow the surface hotspot track and correlate well with a seismic wave-speed gap in the subducting Farallon slab. This observation contradicts the plume model, which requires anomalies in the mid mantle to be confined in a narrow region directly beneath the present-day Yellowstone caldera. I propose an alternative interpretation of the Yellowstone volcanism. About 16 million years ago, a section of young slab that had broken off from a subducted spreading centre in the mantle first penetrated the 660 km discontinuity beneath Oregon and Idaho, and pulled down older stagnant slab. Slab tearing occurred along pre-existing fracture zones and propagated northeastward. This reversed-polarity subduction generated passive upwellings from the lower mantle, which ascended through a water-rich mantle transition zone to produce melting and age-progressive volcanism.

  10. Optimal wildlife management in the greater Yellowstone ecosystem: A spatiotemporal model of disease risk

    USDA-ARS?s Scientific Manuscript database

    South of Yellowstone National Park there are twenty-three sites where elk herds are provided supplementary feeding during the winter and spring months. Supplementary feeding of elk in the Greater Yellowstone Ecosystem (GYE) has been practiced since the early twentieth century, but the practice has b...

  11. Yellowstone Park

    NASA Image and Video Library

    2002-10-15

    Thirteen years after devastating forest fires burned over 1.6 million acres in Yellowstone National Park, the scars are still evident. In this simulated natural color ASTER image, burned areas appear gray, in contrast to the dark green of unburned forests. The image covers an area of 60 x 63 km. This image was acquired on July 2, 2001 by the Advanced Spaceborne Thermal Emission and Reflection Radiometer (ASTER) on NASA's Terra satellite. With its 14 spectral bands from the visible to the thermal infrared wavelength region, and its high spatial resolution of 15 to 90 meters (about 50 to 300 feet), ASTER images Earth to map and monitor the changing surface of our planet. http://photojournal.jpl.nasa.gov/catalog/PIA03875

  12. The genome sequence of the metal-mobilizing, extremely thermoacidophilic archaeon Metallosphaera sedula provides insights into bioleaching-associated metabolism.

    PubMed

    Auernik, Kathryne S; Maezato, Yukari; Blum, Paul H; Kelly, Robert M

    2008-02-01

    Despite their taxonomic description, not all members of the order Sulfolobales are capable of oxidizing reduced sulfur species, which, in addition to iron oxidation, is a desirable trait of biomining microorganisms. However, the complete genome sequence of the extremely thermoacidophilic archaeon Metallosphaera sedula DSM 5348 (2.2 Mb, approximately 2,300 open reading frames [ORFs]) provides insights into biologically catalyzed metal sulfide oxidation. Comparative genomics was used to identify pathways and proteins involved (directly or indirectly) with bioleaching. As expected, the M. sedula genome contains genes related to autotrophic carbon fixation, metal tolerance, and adhesion. Also, terminal oxidase cluster organization indicates the presence of hybrid quinol-cytochrome oxidase complexes. Comparisons with the mesophilic biomining bacterium Acidithiobacillus ferrooxidans ATCC 23270 indicate that the M. sedula genome encodes at least one putative rusticyanin, involved in iron oxidation, and a putative tetrathionate hydrolase, implicated in sulfur oxidation. The fox gene cluster, involved in iron oxidation in the thermoacidophilic archaeon Sulfolobus metallicus, was also identified. These iron- and sulfur-oxidizing components are missing from genomes of nonleaching members of the Sulfolobales, such as Sulfolobus solfataricus P2 and Sulfolobus acidocaldarius DSM 639. Whole-genome transcriptional response analysis showed that 88 ORFs were up-regulated twofold or more in M. sedula upon addition of ferrous sulfate to yeast extract-based medium; these included genes for components of terminal oxidase clusters predicted to be involved with iron oxidation, as well as genes predicted to be involved with sulfur metabolism. Many hypothetical proteins were also differentially transcribed, indicating that aspects of the iron and sulfur metabolism of M. sedula remain to be identified and characterized.

  13. Transcriptomes of the Extremely Thermoacidophilic Archaeon Metallosphaera sedula Exposed to Metal “Shock” Reveal Generic and Specific Metal Responses

    PubMed Central

    Wheaton, Garrett H.; Mukherjee, Arpan

    2016-01-01

    ABSTRACT The extremely thermoacidophilic archaeon Metallosphaera sedula mobilizes metals by novel membrane-associated oxidase clusters and, consequently, requires metal resistance strategies. This issue was examined by “shocking” M. sedula with representative metals (Co2+, Cu2+, Ni2+, UO22+, Zn2+) at inhibitory and subinhibitory levels. Collectively, one-quarter of the genome (554 open reading frames [ORFs]) responded to inhibitory levels, and two-thirds (354) of the ORFs were responsive to a single metal. Cu2+ (259 ORFs, 106 Cu2+-specific ORFs) and Zn2+ (262 ORFs, 131 Zn2+-specific ORFs) triggered the largest responses, followed by UO22+ (187 ORFs, 91 UO22+-specific ORFs), Ni2+ (93 ORFs, 25 Ni2+-specific ORFs), and Co2+ (61 ORFs, 1 Co2+-specific ORF). While one-third of the metal-responsive ORFs are annotated as encoding hypothetical proteins, metal challenge also impacted ORFs responsible for identifiable processes related to the cell cycle, DNA repair, and oxidative stress. Surprisingly, there were only 30 ORFs that responded to at least four metals, and 10 of these responded to all five metals. This core transcriptome indicated induction of Fe-S cluster assembly (Msed_1656-Msed_1657), tungsten/molybdenum transport (Msed_1780-Msed_1781), and decreased central metabolism. Not surprisingly, a metal-translocating P-type ATPase (Msed_0490) associated with a copper resistance system (Cop) was upregulated in response to Cu2+ (6-fold) but also in response to UO22+ (4-fold) and Zn2+ (9-fold). Cu2+ challenge uniquely induced assimilatory sulfur metabolism for cysteine biosynthesis, suggesting a role for this amino acid in Cu2+ resistance or issues in sulfur metabolism. The results indicate that M. sedula employs a range of physiological and biochemical responses to metal challenge, many of which are specific to a single metal and involve proteins with yet unassigned or definitive functions. IMPORTANCE The mechanisms by which extremely thermoacidophilic archaea resist

  14. Ferdinand Vandiveer Hayden and the founding of the Yellowstone National Park

    USGS Publications Warehouse

    ,

    1973-01-01

    Following the Civil War, the United States intensified the exploration of her western frontiers to gain a measure of the vast lands and natural resources in the region now occupied by our Rocky Mountain States. As part of this effort, the U.S. Geological and Geographical Survey of the Territories was formed and staffed under the leadership of geologist Ferdinand Vandiveer Hayden. Originally organized under the U.S. Public Land Office in 1861, the Hayden Survey (as it was most often identified) was placed under the Secretary of the Interior in 1869 and later, under the newly created U.S. Geological Survey. Its records, maps, and photographs were then transferred to the latter agency. In commemorating the centennial of Yellowstone National Park, the U.S. Geological Survey drew upon those items deposited by Hayden to describe the early exploration of the Yellowstone area and to recount events that led to the establishment of Yellowstone as the Nation's first national park.

  15. Twenty Years After the 1988 Yellowstone Fires: Lessons About Disturbance and Ecosystems

    USGS Publications Warehouse

    Romme, W.H.; Boyce, M.S.; Gresswell, R.; Merrill, E.H.; Minshall, G.W.; Whitlock, C.; Turner, M.G.

    2011-01-01

    The 1988 Yellowstone fires were among the first in what has proven to be an upsurge in large severe fires in the western USA during the past 20 years. At the time of the fires, little was known about the impacts of such a large severe disturbance because scientists had had few previous opportunities to study such an event. Ecologists predicted short- and long-term effects of the 1988 fires on vegetation, biogeochemistry, primary productivity, wildlife, and aquatic ecosystems based on scientific understanding of the time. Twenty-plus years of subsequent study allow these early predictions to be evaluated. Most of the original predictions were at least partially supported, but some predictions were refuted, others nuanced, and a few postfire phenomena were entirely unexpected. Post-1988 Yellowstone studies catalyzed advances in ecology focused on the importance of spatial and temporal heterogeneity, contingent influences, and multiple interacting drivers. Post-1988 research in Yellowstone also has changed public perceptions of fire as an ecological process and attitudes towards fire management. Looking ahead to projected climate change and more frequent large fires, the well-documented ecological responses to the 1988 Yellowstone fires provide a foundation for detecting and evaluating potential changes in fire regimes of temperate mountainous regions. ?? 2011 Springer Science+Business Media, LLC.

  16. Movements of a male Canada lynx crossing the greater Yellowstone Area, including highways

    Treesearch

    John R. Squires; Robert Oakleaf

    2005-01-01

    From 1999-2001, a male Canada lynx engaged in yearly exploratory movements across the greater Yellowstone area including the Teton Wilderness Area and Yellowstone National Park. For three consecutive summers, the lynx traversed a similar path in a northwesterly direction from the animal’s home range in the Wyoming Range near Big Piney, Wyoming, to as far as...

  17. Landsat 7 - First Cloud-free Image of Yellowstone National Park

    NASA Technical Reports Server (NTRS)

    2002-01-01

    This image of Yellowstone Lake, in the center of Yellowstone National Park, was taken by Landsat 7 on July 13, 1999. Bands 5 (1.65um),4 (.825um), and 2 (.565um) were used for red, green, and blue, respectively. Water appears blue/black, snow light blue, mature forest red/green, young forest pink, and grass and fields appear light green. Southwest of the lake is young forest that is growing in the wake of the widespread fires of 1988. For more information, see: Landsat 7 Fact Sheet Landsat 7 in Mission Control Image by Rich Irish, NASA GSFC

  18. Endosymbiotic theories for eukaryote origin

    PubMed Central

    Martin, William F.; Garg, Sriram; Zimorski, Verena

    2015-01-01

    For over 100 years, endosymbiotic theories have figured in thoughts about the differences between prokaryotic and eukaryotic cells. More than 20 different versions of endosymbiotic theory have been presented in the literature to explain the origin of eukaryotes and their mitochondria. Very few of those models account for eukaryotic anaerobes. The role of energy and the energetic constraints that prokaryotic cell organization placed on evolutionary innovation in cell history has recently come to bear on endosymbiotic theory. Only cells that possessed mitochondria had the bioenergetic means to attain eukaryotic cell complexity, which is why there are no true intermediates in the prokaryote-to-eukaryote transition. Current versions of endosymbiotic theory have it that the host was an archaeon (an archaebacterium), not a eukaryote. Hence the evolutionary history and biology of archaea increasingly comes to bear on eukaryotic origins, more than ever before. Here, we have compiled a survey of endosymbiotic theories for the origin of eukaryotes and mitochondria, and for the origin of the eukaryotic nucleus, summarizing the essentials of each and contrasting some of their predictions to the observations. A new aspect of endosymbiosis in eukaryote evolution comes into focus from these considerations: the host for the origin of plastids was a facultative anaerobe. PMID:26323761

  19. Amphibian decline in Yellowstone National Park

    Treesearch

    Debra A. Patla; Charles R. Peterson; Paul Stephen Corn

    2009-01-01

    We conduct long-term amphibian monitoring in Yellowstone National Park (YNP) (1) and read McMenamin et al.'s article (2) with interest. This study documents decline in the extent of seasonal wetlands in the Lamar Valley of YNP during extended drought, but the conclusion, widely reported in the media, of "severe declines in 4 once-common amphibian species,...

  20. Crustal deformation of the Yellowstone-Snake River Plain volcano-tectonic system-Campaign and continuous GPS observations, 1987-2004

    USGS Publications Warehouse

    Puskas, C.M.; Smith, R.B.; Meertens, Charles M.; Chang, W. L.

    2007-01-01

    The Yellowstone-Snake River Plain tectonomagmatic province resulted from Late Tertiary volcanism in western North America, producing three large, caldera-forming eruptions at the Yellowstone Plateau in the last 2 Myr. To understand the kinematics and geodynamics of this volcanic system, the University of Utah conducted seven GPS campaigns at 140 sites between 1987 and 2003 and installed a network of 15 permanent stations. GPS deployments focused on the Yellowstone caldera, the Hebgen Lake and Teton faults, and the eastern Snake River Plain. The GPS data revealed periods of uplift and subsidence of the Yellowstone caldera at rates up to 15 mm/yr. From 1987 to 1995, the caldera subsided and contracted, implying volume loss. From 1995 to 2000, deformation shifted to inflation and extension northwest of the caldera. From 2000 to 2003, uplift continued to the northwest while caldera subsidence was renewed. The GPS observations also revealed extension across the Hebgen Lake fault and fault-normal contraction across the Teton fault. Deformation rates of the Yellowstone caldera and Hebgen Lake fault were converted to equivalent total moment rates, which exceeded historic seismic moment release and late Quaternary fault slip-derived moment release by an order of magnitude. The Yellowstone caldera deformation trends were superimposed on regional southwest extension of the Yellowstone Plateau at up to 4.3 ± 0.2 mm/yr, while the eastern Snake River Plain moved southwest as a slower rate at 2.1 ± 0.2 mm/yr. This southwest extension of the Yellowstone-Snake River Plain system merged into east-west extension of the Basin-Range province. Copyright 2007 by the American Geophysical Union.

  1. Lake Generated Microseisms at Yellowstone Lake as a Record of Ice Phenology

    NASA Astrophysics Data System (ADS)

    Mohd Mokhdhari, A. A.; Koper, K. D.; Burlacu, R.

    2017-12-01

    It has recently been shown that wave action in lakes produces microseisms, which generate noise peaks in the period range of 0.8-1.2 s as recorded by nearby seismic stations. Such noise peaks have been observed at seven seismic stations (H17A, LKWY, B208, B944, YTP, YLA, and YLT) located within 2 km of the Yellowstone Lake shoreline. Initial work using 2016 data shows that the variations in the microseism signals at Yellowstone Lake correspond with the freezing and thawing of lake ice: the seismic noise occurs more frequently in the spring, summer, and fall, and less commonly in the winter. If this can be confirmed, then lake-generated microseisms could provide a consistent measure of the freezing and melting dates of high-latitude lakes in remote areas. The seismic data would then be useful in assessing the effects of climate change on the ice phenology of those lakes. In this work, we analyze continuous seismic data recorded by the seven seismic stations around Yellowstone Lake for the years of 1995 to 2016. We generate probability distribution functions of power spectral density for each station to observe the broad elevation of energy near a period of 1 s. The time dependence of this 1-s seismic noise energy is analyzed by extracting the power spectral density at 1 s from every processed hour. The seismic observations are compared to direct measurements of the dates of ice-out and freeze-up as reported by rangers at Yellowstone National Park. We examine how accurate the seismic data are in recording the freezing and melting of Yellowstone Lake, and how the accuracy changes as a function of the number of stations used. We also examine how sensitive the results are to the particular range of periods that are analyzed.

  2. Infectious diseases of wolves in Yellowstone

    USGS Publications Warehouse

    Almberg, Emily S.; Cross, Paul C.; Hudson, Peter J.; Dobson, Andrew P.; Smith, Douglas W.; Stahler, Daniel R.

    2016-01-01

    The summer of 2005 began with such promise for wolves in Yellowstone.  The population had been at an all-time high the last few years, and the wolves appeared to be in good condition.  Several packs had been particularly busy during the breeding season, and early summer pup counts suggested another healthy crop of new wolves rising through the ranks.

  3. Role of an archaeal PitA transporter in the copper and arsenic resistance of Metallosphaera sedula, an extreme thermoacidophile.

    PubMed

    McCarthy, Samuel; Ai, Chenbing; Wheaton, Garrett; Tevatia, Rahul; Eckrich, Valerie; Kelly, Robert; Blum, Paul

    2014-10-01

    Thermoacidophilic archaea, such as Metallosphaera sedula, are lithoautotrophs that occupy metal-rich environments. In previous studies, an M. sedula mutant lacking the primary copper efflux transporter, CopA, became copper sensitive. In contrast, the basis for supranormal copper resistance remained unclear in the spontaneous M. sedula mutant, CuR1. Here, transcriptomic analysis of copper-shocked cultures indicated that CuR1 had a unique regulatory response to metal challenge corresponding to the upregulation of 55 genes. Genome resequencing identified 17 confirmed mutations unique to CuR1 that were likely to change gene function. Of these, 12 mapped to genes with annotated function associated with transcription, metabolism, or transport. These mutations included 7 nonsynonymous substitutions, 4 insertions, and 1 deletion. One of the insertion mutations mapped to pseudogene Msed_1517 and extended its reading frame an additional 209 amino acids. The extended mutant allele was identified as a homolog of Pho4, a family of phosphate symporters that includes the bacterial PitA proteins. Orthologs of this allele were apparent in related extremely thermoacidophilic species, suggesting M. sedula naturally lacked this gene. Phosphate transport studies combined with physiologic analysis demonstrated M. sedula PitA was a low-affinity, high-velocity secondary transporter implicated in copper resistance and arsenate sensitivity. Genetic analysis demonstrated that spontaneous arsenate-resistant mutants derived from CuR1 all underwent mutation in pitA and nonselectively became copper sensitive. Taken together, these results point to archaeal PitA as a key requirement for the increased metal resistance of strain CuR1 and its accelerated capacity for copper bioleaching. Copyright © 2014, American Society for Microbiology. All Rights Reserved.

  4. Role of an Archaeal PitA Transporter in the Copper and Arsenic Resistance of Metallosphaera sedula, an Extreme Thermoacidophile

    PubMed Central

    McCarthy, Samuel; Ai, Chenbing; Wheaton, Garrett; Tevatia, Rahul; Eckrich, Valerie; Kelly, Robert

    2014-01-01

    Thermoacidophilic archaea, such as Metallosphaera sedula, are lithoautotrophs that occupy metal-rich environments. In previous studies, an M. sedula mutant lacking the primary copper efflux transporter, CopA, became copper sensitive. In contrast, the basis for supranormal copper resistance remained unclear in the spontaneous M. sedula mutant, CuR1. Here, transcriptomic analysis of copper-shocked cultures indicated that CuR1 had a unique regulatory response to metal challenge corresponding to the upregulation of 55 genes. Genome resequencing identified 17 confirmed mutations unique to CuR1 that were likely to change gene function. Of these, 12 mapped to genes with annotated function associated with transcription, metabolism, or transport. These mutations included 7 nonsynonymous substitutions, 4 insertions, and 1 deletion. One of the insertion mutations mapped to pseudogene Msed_1517 and extended its reading frame an additional 209 amino acids. The extended mutant allele was identified as a homolog of Pho4, a family of phosphate symporters that includes the bacterial PitA proteins. Orthologs of this allele were apparent in related extremely thermoacidophilic species, suggesting M. sedula naturally lacked this gene. Phosphate transport studies combined with physiologic analysis demonstrated M. sedula PitA was a low-affinity, high-velocity secondary transporter implicated in copper resistance and arsenate sensitivity. Genetic analysis demonstrated that spontaneous arsenate-resistant mutants derived from CuR1 all underwent mutation in pitA and nonselectively became copper sensitive. Taken together, these results point to archaeal PitA as a key requirement for the increased metal resistance of strain CuR1 and its accelerated capacity for copper bioleaching. PMID:25092032

  5. The Genome Sequence of the Metal-Mobilizing, Extremely Thermoacidophilic Archaeon Metallosphaera sedula Provides Insights into Bioleaching-Associated Metabolism▿ †

    PubMed Central

    Auernik, Kathryne S.; Maezato, Yukari; Blum, Paul H.; Kelly, Robert M.

    2008-01-01

    Despite their taxonomic description, not all members of the order Sulfolobales are capable of oxidizing reduced sulfur species, which, in addition to iron oxidation, is a desirable trait of biomining microorganisms. However, the complete genome sequence of the extremely thermoacidophilic archaeon Metallosphaera sedula DSM 5348 (2.2 Mb, ∼2,300 open reading frames [ORFs]) provides insights into biologically catalyzed metal sulfide oxidation. Comparative genomics was used to identify pathways and proteins involved (directly or indirectly) with bioleaching. As expected, the M. sedula genome contains genes related to autotrophic carbon fixation, metal tolerance, and adhesion. Also, terminal oxidase cluster organization indicates the presence of hybrid quinol-cytochrome oxidase complexes. Comparisons with the mesophilic biomining bacterium Acidithiobacillus ferrooxidans ATCC 23270 indicate that the M. sedula genome encodes at least one putative rusticyanin, involved in iron oxidation, and a putative tetrathionate hydrolase, implicated in sulfur oxidation. The fox gene cluster, involved in iron oxidation in the thermoacidophilic archaeon Sulfolobus metallicus, was also identified. These iron- and sulfur-oxidizing components are missing from genomes of nonleaching members of the Sulfolobales, such as Sulfolobus solfataricus P2 and Sulfolobus acidocaldarius DSM 639. Whole-genome transcriptional response analysis showed that 88 ORFs were up-regulated twofold or more in M. sedula upon addition of ferrous sulfate to yeast extract-based medium; these included genes for components of terminal oxidase clusters predicted to be involved with iron oxidation, as well as genes predicted to be involved with sulfur metabolism. Many hypothetical proteins were also differentially transcribed, indicating that aspects of the iron and sulfur metabolism of M. sedula remain to be identified and characterized. PMID:18083856

  6. Airborne lidar detection and mapping of invasive lake trout in Yellowstone Lake.

    PubMed

    Roddewig, Michael R; Churnside, James H; Hauer, F Richard; Williams, Jacob; Bigelow, Patricia E; Koel, Todd M; Shaw, Joseph A

    2018-05-20

    The use of airborne lidar to survey fisheries has not yet been extensively applied in freshwater environments. In this study, we investigated the applicability of this technology to identify invasive lake trout (Salvelinus namaycush) in Yellowstone Lake, Yellowstone National Park, USA. Results of experimental trials conducted in 2004 and in 2015-16 provided lidar data that identified groups of fish coherent with current knowledge and models of lake trout spawning sites, and one identified site was later confirmed to have lake trout.

  7. 36 CFR 7.13 - Yellowstone National Park.

    Code of Federal Regulations, 2014 CFR

    2014-07-01

    ... license. Non-commercially guided group means a group of no more than five snowmobiles, including a non... traveling together in Yellowstone National Park on any given day or a non-commercially guided group, which... ascertain which snowmobiles in the park are part of a non-commercially guided group. (vi) Non-commercial...

  8. Transfer RNA methyltransferases from Thermoplasma acidophilum, a thermoacidophilic archaeon.

    PubMed

    Kawamura, Takuya; Anraku, Ryou; Hasegawa, Takahiro; Tomikawa, Chie; Hori, Hiroyuki

    2014-12-23

    We investigated tRNA methyltransferase activities in crude cell extracts from the thermoacidophilic archaeon Thermoplasma acidophilum. We analyzed the modified nucleosides in native initiator and elongator tRNAMet, predicted the candidate genes for the tRNA methyltransferases on the basis of the tRNAMet and tRNALeu sequences, and characterized Trm5, Trm1 and Trm56 by purifying recombinant proteins. We found that the Ta0997, Ta0931, and Ta0836 genes of T. acidophilum encode Trm1, Trm56 and Trm5, respectively. Initiator tRNAMet from T. acidophilum strain HO-62 contained G+, m1I, and m22G, which were not reported previously in this tRNA, and the m2G26 and m22G26 were formed by Trm1. In the case of elongator tRNAMet, our analysis showed that the previously unidentified G modification at position 26 was a mixture of m2G and m22G, and that they were also generated by Trm1. Furthermore, purified Trm1 and Trm56 could methylate the precursor of elongator tRNAMet, which has an intron at the canonical position. However, the speed of methyl-transfer by Trm56 to the precursor RNA was considerably slower than that to the mature transcript, which suggests that Trm56 acts mainly on the transcript after the intron has been removed. Moreover, cellular arrangements of the tRNA methyltransferases in T. acidophilum are discussed.

  9. Hydrothermal processes above the Yellowstone magma chamber: Large hydrothermal systems and large hydrothermal explosions

    USGS Publications Warehouse

    Morgan, L.A.; Shanks, W.C. Pat; Pierce, K.L.

    2009-01-01

    Hydrothermal explosions are violent and dramatic events resulting in the rapid ejection of boiling water, steam, mud, and rock fragments from source craters that range from a few meters up to more than 2 km in diameter; associated breccia can be emplaced as much as 3 to 4 km from the largest craters. Hydrothermal explosions occur where shallow interconnected reservoirs of steam- and liquid-saturated fluids with temperatures at or near the boiling curve underlie thermal fields. Sudden reduction in confi ning pressure causes fluids to fl ash to steam, resulting in signifi cant expansion, rock fragmentation, and debris ejection. In Yellowstone, hydrothermal explosions are a potentially signifi cant hazard for visitors and facilities and can damage or even destroy thermal features. The breccia deposits and associated craters formed from hydrothermal explosions are mapped as mostly Holocene (the Mary Bay deposit is older) units throughout Yellowstone National Park (YNP) and are spatially related to within the 0.64-Ma Yellowstone caldera and along the active Norris-Mammoth tectonic corridor. In Yellowstone, at least 20 large (>100 m in diameter) hydrothermal explosion craters have been identifi ed; the scale of the individual associated events dwarfs similar features in geothermal areas elsewhere in the world. Large hydrothermal explosions in Yellowstone have occurred over the past 16 ka averaging ??1 every 700 yr; similar events are likely in the future. Our studies of large hydrothermal explosion events indicate: (1) none are directly associated with eruptive volcanic or shallow intrusive events; (2) several historical explosions have been triggered by seismic events; (3) lithic clasts and comingled matrix material that form hydrothermal explosion deposits are extensively altered, indicating that explosions occur in areas subjected to intense hydrothermal processes; (4) many lithic clasts contained in explosion breccia deposits preserve evidence of repeated fracturing

  10. Mapping vegetation in Yellowstone National Park using spectral feature analysis of AVIRIS data

    USGS Publications Warehouse

    Kokaly, Raymond F.; Despain, Don G.; Clark, Roger N.; Livo, K. Eric

    2003-01-01

    Knowledge of the distribution of vegetation on the landscape can be used to investigate ecosystem functioning. The sizes and movements of animal populations can be linked to resources provided by different plant species. This paper demonstrates the application of imaging spectroscopy to the study of vegetation in Yellowstone National Park (Yellowstone) using spectral feature analysis of data from the Airborne Visible/Infrared Imaging Spectrometer (AVIRIS). AVIRIS data, acquired on August 7, 1996, were calibrated to surface reflectance using a radiative transfer model and field reflectance measurements of a ground calibration site. A spectral library of canopy reflectance signatures was created by averaging pixels of the calibrated AVIRIS data over areas of known forest and nonforest vegetation cover types in Yellowstone. Using continuum removal and least squares fitting algorithms in the US Geological Survey's Tetracorder expert system, the distributions of these vegetation types were determined by comparing the absorption features of vegetation in the spectral library with the spectra from the AVIRIS data. The 0.68 μm chlorophyll absorption feature and leaf water absorption features, centered near 0.98 and 1.20 μm, were analyzed. Nonforest cover types of sagebrush, grasslands, willows, sedges, and other wetland vegetation were mapped in the Lamar Valley of Yellowstone. Conifer cover types of lodgepole pine, whitebark pine, Douglas fir, and mixed Engelmann spruce/subalpine fir forests were spectrally discriminated and their distributions mapped in the AVIRIS images. In the Mount Washburn area of Yellowstone, a comparison of the AVIRIS map of forest cover types to a map derived from air photos resulted in an overall agreement of 74.1% (kappa statistic=0.62).

  11. [Thermoacidophilic micirobial community oxidizing the gold-bearing flotation concentrate of a pyrite-arsenopyrite ore].

    PubMed

    Paniushkina, A E; Tsaplina, I A; Grigor'eva, N V; Kondrat'eva, T F

    2014-01-01

    An aboriginal community of thermophilic acidophilic chemolithotrophic microorganisms (ACM) was isolated from a sample of pyrite gold-bearing flotation concentrateat 45-47 degrees C and pH 1.8-2.0. Compared to an experimental thermoacidophilic microbial consortium formed in the course of cultivation in parallel bioreactors, it had lower rates of iron leaching and oxidation, while its rate of sulfur oxidation was higher. A new thermophilic acidophilic microbial community was obtained by mutual enrichment with the micioorganisms from thie experimental and aboriginal communities during oxidation of sulfide ore flotation concentrate at 47 degrees C. The dominant bacteria of this new ACM community were Acidithiobacillus caldus strains (the most active sulfur oxidizers) and Sulfobacillus thermotolerans strains (active oxidizers of both iron and sulfur), while iron-oxidizing archaea of the family Ferroplasmaceae and heterotrophic bacteria Alicyclobacillus tolerans were the minor components. The new ACM community showed promise for leaching/oxidation of sulfides from flotation concentrates at high pulp density (S:L = 1:4).

  12. Seismic Evidence for Lower Mantle Plume Under the Yellowstone Hotspot

    NASA Astrophysics Data System (ADS)

    Nelson, P.; Grand, S.

    2017-12-01

    The mantle plume hypothesis for the origin of intraplate volcanism has been controversial since its inception in the 1970s. The hypothesis proposes hot narrow upwelling of rock rooted at the core mantle boundary (CMB) rise through the mantle and interact with the base of the lithosphere forming linear volcanic systems such as Hawaii and Yellowstone. Recently, broad lower mantle (>500 km in diameter) slow velocity conduits, most likely thermochemical in origin, have been associated with some intraplate volcanic provinces (French and Romanowicz, 2015). However, the direct detection of a classical thin thermal plume in the lower mantle using travel time tomography has remained elusive (Anderson and Natland, 2014). Here we present a new shear wave tomography model for the mantle beneath the western United States that is optimized to find short wavelength, sub-vertical structures in the lower mantle. Our approach uses carefully measured SKS and SKKS travel times recorded by dense North American seismic networks in conjunction with finite frequency kernels to build on existing tomography models. We find the presence of a narrow ( 300 km diameter) well isolated cylindrically shaped slow anomaly in the lower most mantle which we associate with the Yellowstone Hotspot. The conduit has a 2% reduction in shear velocity and is rooted at the CMB near the California/Arizona/Nevada border. A cross sectional view through the anomaly shows that it is slightly tilted toward the north until about 1300 km depth where it appears to weaken and deflect toward the surficial positon of the hotspot. Given the anomaly's strength, proximity to the Yellowstone Hotspot, and morphology we argue that a thermal plume interpretation is the most reasonable. Our results provide strong support for a lower mantle plume origin of the Yellowstone hotspot and more importantly the existence of deep thermal plumes.

  13. Flood estimates for ungaged streams in Glacier and Yellowstone National Parks, Montana

    USGS Publications Warehouse

    Omang, R.J.; Parrett, Charles; Hull, J.A.

    1983-01-01

    Estimates of 100-year discharges were made at 59 sites in Glacier National Park and 21 sites in Yellowstone National Park to assist the National Park Services in quantifying stream inflow and outflow in the Parks. The estimates were made using regression equations previously developed for Montana. The resulting 100-year discharges are listed in tables; the discharges ranged from 260 to 53,200 cu ft/s in Glacier National Park and from 110 to 27,900 cu ft/s in Yellowstone National Park. (USGS)

  14. Cosmogenic exposure-age chronologies of Pinedale and Bull Lake glaciations in greater Yellowstone and the Teton Range, USA

    USGS Publications Warehouse

    Licciardi, J.M.; Pierce, K.L.

    2008-01-01

    We have obtained 69 new cosmogenic 10Be surface exposure ages from boulders on moraines deposited by glaciers of the greater Yellowstone glacial system and Teton Range during the middle and late Pleistocene. These new data, combined with 43 previously obtained 3He and 10Be ages from deposits of the northern Yellowstone outlet glacier, establish a high-resolution chronology for the Yellowstone-Teton mountain glacier complexes. Boulders deposited at the southern limit of the penultimate ice advance of the Yellowstone glacial system yield a mean age of 136??13 10Be ka and oldest ages of ???151-157 10Be ka. These ages support a correlation with the Bull Lake of West Yellowstone, with the type Bull Lake of the Wind River Range, and with Marine Isotope Stage (MIS) 6. End moraines marking the maximum Pinedale positions of outlet glaciers around the periphery of the Yellowstone glacial system range in age from 18.8??0.9 to 16.5??1.4 10Be ka, and possibly as young as 14.6??0.7 10Be ka, suggesting differences in response times of the various ice-cap source regions. Moreover, all dated Pinedale terminal moraines in the greater Yellowstone glacial system post-date the Pinedale maximum in the Wind River Range by ???4-6 kyr, indicating a significant phase relationship between glacial maxima in these adjacent ranges. Boulders on the outermost set and an inner set of Pinedale end moraines enclosing Jenny Lake on the eastern Teton front yield mean ages of 14.6??0.7 and 13.5??1.1 10Be ka, respectively. The outer Jenny Lake moraines are partially buried by outwash from ice on the Yellowstone Plateau, hence their age indicates a major standstill of an expanded valley glacier in the Teton Range prior to the Younger Dryas, followed closely by deglaciation of the Yellowstone Plateau. These new glacial chronologies are indicative of spatially variable regional climate forcing and temporally complex patterns of glacier responses in this region of the Rocky Mountains during the Pleistocene

  15. Volatile emissions and gas geochemistry of Hot Spring Basin, Yellowstone National Park, USA

    USGS Publications Warehouse

    Werner, C.; Hurwitz, S.; Evans, William C.; Lowenstern, J. B.; Bergfeld, D.; Heasler, H.; Jaworowski, C.; Hunt, A.

    2008-01-01

    We characterize and quantify volatile emissions at Hot Spring Basin (HSB), a large acid-sulfate region that lies just outside the northeastern edge of the 640??ka Yellowstone Caldera. Relative to other thermal areas in Yellowstone, HSB gases are rich in He and H2, and mildly enriched in CH4 and H2S. Gas compositions are consistent with boiling directly off a deep geothermal liquid at depth as it migrates toward the surface. This fluid, and the gases evolved from it, carries geochemical signatures of magmatic volatiles and water-rock reactions with multiple crustal sources, including limestones or quartz-rich sediments with low K/U (or 40*Ar/4*He). Variations in gas chemistry across the region reflect reservoir heterogeneity and variable degrees of boiling. Gas-geothermometer temperatures approach 300????C and suggest that the reservoir feeding HSB is one of the hottest at Yellowstone. Diffuse CO2 flux in the western basin of HSB, as measured by accumulation-chamber methods, is similar in magnitude to other acid-sulfate areas of Yellowstone and is well correlated to shallow soil temperatures. The extrapolation of diffuse CO2 fluxes across all the thermal/altered area suggests that 410 ?? 140??t d- 1 CO2 are emitted at HSB (vent emissions not included). Diffuse fluxes of H2S were measured in Yellowstone for the first time and likely exceed 2.4??t d- 1 at HSB. Comparing estimates of the total estimated diffuse H2S emission to the amount of sulfur as SO42- in streams indicates ~ 50% of the original H2S in the gas emission is lost into shallow groundwater, precipitated as native sulfur, or vented through fumaroles. We estimate the heat output of HSB as ~ 140-370??MW using CO2 as a tracer for steam condensate, but not including the contribution from fumaroles and hydrothermal vents. Overall, the diffuse heat and volatile fluxes of HSB are as great as some active volcanoes, but they are a small fraction (1-3% for CO2, 2-8% for heat) of that estimated for the entire

  16. Symbiosis in eukaryotic evolution.

    PubMed

    López-García, Purificación; Eme, Laura; Moreira, David

    2017-12-07

    Fifty years ago, Lynn Margulis, inspiring in early twentieth-century ideas that put forward a symbiotic origin for some eukaryotic organelles, proposed a unified theory for the origin of the eukaryotic cell based on symbiosis as evolutionary mechanism. Margulis was profoundly aware of the importance of symbiosis in the natural microbial world and anticipated the evolutionary significance that integrated cooperative interactions might have as mechanism to increase cellular complexity. Today, we have started fully appreciating the vast extent of microbial diversity and the importance of syntrophic metabolic cooperation in natural ecosystems, especially in sediments and microbial mats. Also, not only the symbiogenetic origin of mitochondria and chloroplasts has been clearly demonstrated, but improvement in phylogenomic methods combined with recent discoveries of archaeal lineages more closely related to eukaryotes further support the symbiogenetic origin of the eukaryotic cell. Margulis left us in legacy the idea of 'eukaryogenesis by symbiogenesis'. Although this has been largely verified, when, where, and specifically how eukaryotic cells evolved are yet unclear. Here, we shortly review current knowledge about symbiotic interactions in the microbial world and their evolutionary impact, the status of eukaryogenetic models and the current challenges and perspectives ahead to reconstruct the evolutionary path to eukaryotes. Copyright © 2017 Elsevier Ltd. All rights reserved.

  17. Yellowstone volcano-tectonic microseismic cycles constrain models of migrating volcanic fluids

    NASA Astrophysics Data System (ADS)

    Massin, F.; Farrell, J.; Smith, R. B.

    2011-12-01

    The objective of our research is to evaluate the source properties of extensive earthquake swarms in and around the 0.64Myr Yellowstone caldera, Yellowstone National Park, that is also the locus of widespread hydrothermal activity and ground deformation. We use earthquake waveforms data to investigate seismic wave multiplets that occur within discrete earthquake sequences. Waveform cross-correlation coefficients are computed from data acquired at six high quality stations that are merged from data of identical earthquakes into multiplets. Multiplets provide important indicators on the rupture process of the distinct seismogenic structures. Our multiplet database allowed evaluation of the seismic-source chronology from 1992 to 2010. We assess the evolution of micro-earthquake triggering by evaluating the evolution of earthquake rates and magnitudes. Some striking differences appear between two kinds of seismic swarms: 1) swarms with a high rate of repeating earthquakes of more than 200 events per day, and 2) swarms with a low rate of repeating earthquakes (less than 20 events per day). The 2010 Madison Plateau, western caldera, and the 2008-2009 Yellowstone Lake, eastern caldera, earthquake swarms are two examples representing respectively cascading relaxation of a uniform stress, and an example of highly concentrated stress perturbation induced by a migrating material. The repeating earthquake pattern methodology was then used to characterize the composition of the migrating material by modelling the migration time-space pattern with a experimental thermo-physical simulations of solidification of a fluid filled propagating dike. Comparison of our results with independent GPS deformation data suggests a most-likely model of rhyolitic-granitic magma intrusion along a vertical dike outlined by the pattern of earthquakes. The magma-hydrothermal mix was modeled with a temperature of 800°C-900°C and an average volumetric injection flux between 1.5 and 5 m3/s. Our

  18. Remarkable archaeal diversity detected in a Yellowstone National Park hot spring environment.

    PubMed Central

    Barns, S M; Fundyga, R E; Jeffries, M W; Pace, N R

    1994-01-01

    Of the three primary phylogenetic domains--Archaea (archaebacteria), Bacteria (eubacteria), and Eucarya (eukaryotes)--Archaea is the least understood in terms of its diversity, physiologies, and ecological panorama. Although many species of Crenarchaeota (one of the two recognized archaeal kingdoms sensu Woese [Woese, C. R., Kandler, O. & Wheelis, M. L. (1990) Proc. Natl. Acad. Sci. USA 87, 4576-4579]) have been isolated, they constitute a relatively tight-knit cluster of lineages in phylogenetic analyses of rRNA sequences. It seemed possible that this limited diversity is merely apparent and reflects only a failure to culture organisms, not their absence. We report here phylogenetic characterization of many archaeal small subunit rRNA gene sequences obtained by polymerase chain reaction amplification of mixed population DNA extracted directly from sediment of a hot spring in Yellowstone National Park. This approach obviates the need for cultivation to identify organisms. The analyses document the existence not only of species belonging to well-characterized crenarchaeal genera or families but also of crenarchaeal species for which no close relatives have so far been found. The large number of distinct archaeal sequence types retrieved from this single hot spring was unexpected and demonstrates that Crenarchaeota is a much more diverse group than was previously suspected. The results have impact on our concepts of the phylogenetic organization of Archaea. PMID:7510403

  19. Communities of microbial eukaryotes in the mammalian gut within the context of environmental eukaryotic diversity

    DOE Office of Scientific and Technical Information (OSTI.GOV)

    Parfrey, Laura Wegener; Walters, William A.; Lauber, Christian L.

    2014-06-19

    Eukaryotic microbes (protists) residing in the vertebrate gut influence host health and disease, but their diversity and distribution in healthy hosts is poorly understood. Protists found in the gut are typically considered parasites, but many are commensal and some are beneficial. Further, the hygiene hypothesis predicts that association with our co-evolved microbial symbionts may be important to overall health. It is therefore imperative that we understand the normal diversity of our eukaryotic gut microbiota to test for such effects and avoid eliminating commensal organisms. We assembled a dataset of healthy individuals from two populations, one with traditional, agrarian lifestyles andmore » a second with modern, westernized lifestyles, and characterized the human eukaryotic microbiota via high-throughput sequencing. To place the human gut microbiota within a broader context our dataset also includes gut samples from diverse mammals and samples from other aquatic and terrestrial environments. We curated the SILVA ribosomal database to reflect current knowledge of eukaryotic taxonomy and employ it as a phylogenetic framework to compare eukaryotic diversity across environment. We show that adults from the non-western population harbor a diverse community of protists, and diversity in the human gut is comparable to that in other mammals. However, the eukaryotic microbiota of the western population appears depauperate. The distribution of symbionts found in mammals reflects both host phylogeny and diet. Eukaryotic microbiota in the gut are less diverse and more patchily distributed than bacteria. More broadly, we show that eukaryotic communities in the gut are less diverse than in aquatic and terrestrial habitats, and few taxa are shared across habitat types, and diversity patterns of eukaryotes are correlated with those observed for bacteria. These results outline the distribution and diversity of microbial eukaryotic communities in the mammalian gut and across

  20. 76 FR 37888 - Yellowstone Valley Railroad, L.L.C.-Discontinuance of Service Exemption-in Dawson and Richland...

    Federal Register 2010, 2011, 2012, 2013, 2014

    2011-06-28

    ... contains false or misleading information, the exemption is void ab initio. Board decisions and notices are... DEPARTMENT OF TRANSPORTATION Surface Transportation Board [Docket No. AB 991X] Yellowstone Valley Railroad, L.L.C.--Discontinuance of Service Exemption--in Dawson and Richland Counties, Mont. Yellowstone...

  1. Gas and isotope chemistry of thermal features in Yellowstone National Park, Wyoming

    USGS Publications Warehouse

    Bergfeld, D.; Lowenstern, Jacob B.; Hunt, Andrew G.; Shanks, W.C. Pat; Evans, William

    2011-01-01

    This report presents 130 gas analyses and 31 related water analyses on samples collected from thermal features at Yellowstone between 2003 and 2009. An overview of previous studies of gas emissions at Yellowstone is also given. The analytical results from the present study include bulk chemistry of gases and waters and isotope values for water and steam (delta18O, dealtaD), carbon dioxide (delta13C only), methane (delta13C only), helium, neon, and argon. We include appendixes containing photos of sample sites, geographic information system (GIS) files including shape and kml formats, and analytical results in spreadsheets. In addition, we provide a lengthy discussion of previous work on gas chemistry at Yellowstone and a general discussion of the implications of our results. We demonstrate that gases collected from different thermal areas often have distinct chemical signatures, and that differences across the thermal areas are not a simple function of surface temperatures or the type of feature. Instead, gas chemistry and isotopic composition are linked to subsurface lithologies and varying contributions from magmatic, crustal, and meteoric sources.

  2. Climatic change and wetland desiccation cause amphibian decline in Yellowstone National Park.

    PubMed

    McMenamin, Sarah K; Hadly, Elizabeth A; Wright, Christopher K

    2008-11-04

    Amphibians are a bellwether for environmental degradation, even in natural ecosystems such as Yellowstone National Park in the western United States, where species have been actively protected longer than anywhere else on Earth. We document that recent climatic warming and resultant wetland desiccation are causing severe declines in 4 once-common amphibian species native to Yellowstone. Climate monitoring over 6 decades, remote sensing, and repeated surveys of 49 ponds indicate that decreasing annual precipitation and increasing temperatures during the warmest months of the year have significantly altered the landscape and the local biological communities. Drought is now more common and more severe than at any time in the past century. Compared with 16 years ago, the number of permanently dry ponds in northern Yellowstone has increased 4-fold. Of the ponds that remain, the proportion supporting amphibians has declined significantly, as has the number of species found in each location. Our results indicate that climatic warming already has disrupted one of the best-protected ecosystems on our planet and that current assessments of species' vulnerability do not adequately consider such impacts.

  3. Climatic change and wetland desiccation cause amphibian decline in Yellowstone National Park

    PubMed Central

    McMenamin, Sarah K.; Hadly, Elizabeth A.; Wright, Christopher K.

    2008-01-01

    Amphibians are a bellwether for environmental degradation, even in natural ecosystems such as Yellowstone National Park in the western United States, where species have been actively protected longer than anywhere else on Earth. We document that recent climatic warming and resultant wetland desiccation are causing severe declines in 4 once-common amphibian species native to Yellowstone. Climate monitoring over 6 decades, remote sensing, and repeated surveys of 49 ponds indicate that decreasing annual precipitation and increasing temperatures during the warmest months of the year have significantly altered the landscape and the local biological communities. Drought is now more common and more severe than at any time in the past century. Compared with 16 years ago, the number of permanently dry ponds in northern Yellowstone has increased 4-fold. Of the ponds that remain, the proportion supporting amphibians has declined significantly, as has the number of species found in each location. Our results indicate that climatic warming already has disrupted one of the best-protected ecosystems on our planet and that current assessments of species' vulnerability do not adequately consider such impacts. PMID:18955700

  4. Transmission of Brucellosis from Elk to Cattle and Bison, Greater Yellowstone Area, USA, 2002–2012

    PubMed Central

    Nol, Pauline; Quance, Christine; Gertonson, Arnold; Belfrage, John; Harris, Lauren; Straka, Kelly; Robbe-Austerman, Suelee

    2013-01-01

    Bovine brucellosis has been nearly eliminated from livestock in the United States. Bison and elk in the Greater Yellowstone Area remain reservoirs for the disease. During 1990–2002, no known cases occurred in Greater Yellowstone Area livestock. Since then, 17 transmission events from wildlife to livestock have been investigated. PMID:24274092

  5. Yellowstone wolves and the forces that structure natural systems.

    PubMed

    Dobson, Andy P

    2014-12-01

    Since their introduction in 1995 and 1996, wolves have had effects on Yellowstone that ripple across the entire structure of the food web that defines biodiversity in the Northern Rockies ecosystem. Ecological interpretations of the wolves have generated a significant amount of debate about the relative strength of top-down versus bottom-up forces in determining herbivore and vegetation abundance in Yellowstone. Debates such as this are central to the resolution of broader debates about the role of natural enemies and climate as forces that structure food webs and modify ecosystem function. Ecologists need to significantly raise the profile of these discussions; understanding the forces that structure food webs and determine species abundance and the supply of ecosystem services is one of the central scientific questions for this century; its complexity will require new minds, new mathematics, and significant, consistent funding.

  6. Yellowstone Wolves and the Forces That Structure Natural Systems

    PubMed Central

    Dobson, Andy P.

    2014-01-01

    Since their introduction in 1995 and 1996, wolves have had effects on Yellowstone that ripple across the entire structure of the food web that defines biodiversity in the Northern Rockies ecosystem. Ecological interpretations of the wolves have generated a significant amount of debate about the relative strength of top-down versus bottom-up forces in determining herbivore and vegetation abundance in Yellowstone. Debates such as this are central to the resolution of broader debates about the role of natural enemies and climate as forces that structure food webs and modify ecosystem function. Ecologists need to significantly raise the profile of these discussions; understanding the forces that structure food webs and determine species abundance and the supply of ecosystem services is one of the central scientific questions for this century; its complexity will require new minds, new mathematics, and significant, consistent funding. PMID:25535737

  7. Gray Wolves as Climate Change Buffers in Yellowstone

    PubMed Central

    Getz, Wayne M

    2005-01-01

    Understanding the mechanisms by which climate and predation patterns by top predators co-vary to affect community structure accrues added importance as humans exert growing influence over both climate and regional predator assemblages. In Yellowstone National Park, winter conditions and reintroduced gray wolves (Canis lupus) together determine the availability of winter carrion on which numerous scavenger species depend for survival and reproduction. As climate changes in Yellowstone, therefore, scavenger species may experience a dramatic reshuffling of food resources. As such, we analyzed 55 y of weather data from Yellowstone in order to determine trends in winter conditions. We found that winters are getting shorter, as measured by the number of days with snow on the ground, due to decreased snowfall and increased number of days with temperatures above freezing. To investigate synergistic effects of human and climatic alterations of species interactions, we used an empirically derived model to show that in the absence of wolves, early snow thaw leads to a substantial reduction in late-winter carrion, causing potential food bottlenecks for scavengers. In addition, by narrowing the window of time over which carrion is available and thereby creating a resource pulse, climate change likely favors scavengers that can quickly track food sources over great distances. Wolves, however, largely mitigate late-winter reduction in carrion due to earlier snow thaws. By buffering the effects of climate change on carrion availability, wolves allow scavengers to adapt to a changing environment over a longer time scale more commensurate with natural processes. This study illustrates the importance of restoring and maintaining intact food chains in the face of large-scale environmental perturbations such as climate change. PMID:15757363

  8. Gray wolves as climate change buffers in Yellowstone.

    PubMed

    Wilmers, Christopher C; Getz, Wayne M

    2005-04-01

    Understanding the mechanisms by which climate and predation patterns by top predators co-vary to affect community structure accrues added importance as humans exert growing influence over both climate and regional predator assemblages. In Yellowstone National Park, winter conditions and reintroduced gray wolves (Canis lupus) together determine the availability of winter carrion on which numerous scavenger species depend for survival and reproduction. As climate changes in Yellowstone, therefore, scavenger species may experience a dramatic reshuffling of food resources. As such, we analyzed 55 y of weather data from Yellowstone in order to determine trends in winter conditions. We found that winters are getting shorter, as measured by the number of days with snow on the ground, due to decreased snowfall and increased number of days with temperatures above freezing. To investigate synergistic effects of human and climatic alterations of species interactions, we used an empirically derived model to show that in the absence of wolves, early snow thaw leads to a substantial reduction in late-winter carrion, causing potential food bottlenecks for scavengers. In addition, by narrowing the window of time over which carrion is available and thereby creating a resource pulse, climate change likely favors scavengers that can quickly track food sources over great distances. Wolves, however, largely mitigate late-winter reduction in carrion due to earlier snow thaws. By buffering the effects of climate change on carrion availability, wolves allow scavengers to adapt to a changing environment over a longer time scale more commensurate with natural processes. This study illustrates the importance of restoring and maintaining intact food chains in the face of large-scale environmental perturbations such as climate change.

  9. Streamflow statistics for unregulated and regulated conditions for selected locations on the Yellowstone, Tongue, and Powder Rivers, Montana, 1928-2002

    USGS Publications Warehouse

    Chase, Katherine J.

    2013-01-01

    Major floods in 1996 and 1997 on the Yellowstone River in Montana intensified public debate over the effects of human activities on the Yellowstone River. In 1999, the Yellowstone River Conservation District Council was formed to address conservation issues on the river. The Yellowstone River Conservation District Council partnered with the U.S. Army Corps of Engineers to conduct a cumulative-effects study on the main stem of the Yellowstone River. The cumulative-effects study is intended to provide a basis for future management decisions in the watershed. Streamflow statistics, such as flow-frequency and flow-duration data calculated for unregulated and regulated streamflow conditions, are a necessary component of the cumulative effects study. The U.S. Geological Survey, in cooperation with the Yellowstone River Conservation District Council and the U.S. Army Corps of Engineers, calculated streamflow statistics for unregulated and regulated conditions for the Yellowstone, Tongue, and Powder Rivers for the 1928–2002 study period. Unregulated streamflow represents flow conditions that might have occurred during the 1928–2002 study period if there had been no water-resources development in the Yellowstone River Basin. Regulated streamflow represents estimates of flow conditions during the 1928–2002 study period if the level of water-resources development existing in 2002 was in place during the entire study period. Peak-flow frequency estimates for regulated and unregulated streamflow were developed using methods described in Bulletin 17B. High-flow frequency and low-flow frequency data were developed for regulated and unregulated streamflows from the annual series of highest and lowest (respectively) mean flows for specified n-day consecutive periods within the calendar year. Flow-duration data, and monthly and annual streamflow characteristics, also were calculated for the unregulated and regulated streamflows.

  10. Geochemistry of High Temperature Vent Fluids in Yellowstone Lake: Dissolved Carbon and Sulfur Concentrations and Isotopic Data

    NASA Astrophysics Data System (ADS)

    Cino, C.; Seyfried, W. E., Jr.; Tan, C.; Fu, Q.

    2017-12-01

    Yellowstone National Park is a dynamic environment home to an array of geysers, hot springs, and hydrothermal vents fueled by the underlying continental magmatic intrusion. Yellowstone Lake vent fluids accounts for approximately 10% of the total geothermal flux for all of Yellowstone National Park. Though studying this remote hydrothermal system poses severe challenges, it provides an excellent natural laboratory to research hydrothermal fluids that undergo higher pressure and temperature conditions in an environment largely shielded from atmospheric oxygen. The location of these vents also provides chemistry that is characteristic of fluids deeper in the Yellowstone hydrothermal system. In August 2016, hydrothermal fluids were collected from the Stevenson Island vents in collaboration with the Hydrothermal Dynamics of Yellowstone Lake (HD-YLAKE) project using novel sampling techniques and monitoring instrumentation. The newly built ROV Yogi was deployed to reach the vents in-situ with temperatures in excess of 151oC at 100-120 m depth, equipped with a 12-cylinder isobaric sampler to collect the hydrothermal fluids. Results from geochemical analyses indicate the fluids are rich in gases such as CO2, CH4, and H2S, with sample concentrations of approximately 12 mM, 161 μm, and 2.1 mM respectively. However, lake water mixing with the hydrothermal endmember fluid likely diluted these concentrations in the collected samples. Isotopic analyses indicate CO2 has a δ13C of -6 indicating magmatic origins, however the CH4 resulted in a δ13C of -65 which is in the biological range. This biogenic signature is likely due to the pyrolysis of immature organic matter in the lake bottom sediment, since the high temperatures measured for the fluids would not allow the presence of methanogens. H2S concentrations have not been previously measured for the hydrothermal fluids in Yellowstone Lake, and our vent fluid samples indicate significantly higher H2S concentrations than reported

  11. Exterior sound level measurements of snowcoaches at Yellowstone National Park

    DOT National Transportation Integrated Search

    2010-04-01

    Sounds associated with oversnow vehicles, such as snowmobiles and snowcoaches, are an important management concern at Yellowstone and Grand Teton National Parks. The John A. Volpe National Transportation Systems Centers Environmental Measurement a...

  12. Genome analysis of the thermoacidophilic archaeon Acidianus copahuensis focusing on the metabolisms associated to biomining activities.

    PubMed

    Urbieta, María Sofía; Rascovan, Nicolás; Vázquez, Martín P; Donati, Edgardo

    2017-06-06

    Several archaeal species from the order Sulfolobales are interesting from the biotechnological point of view due to their biomining capacities. Within this group, the genus Acidianus contains four biomining species (from ten known Acidianus species), but none of these have their genome sequenced. To get insights into the genetic potential and metabolic pathways involved in the biomining activity of this group, we sequenced the genome of Acidianus copahuensis ALE1 strain, a novel thermoacidophilic crenarchaeon (optimum growth: 75 °C, pH 3) isolated from the volcanic geothermal area of Copahue at Neuquén province in Argentina. Previous experimental characterization of A. copahuensis revealed a high biomining potential, exhibited as high oxidation activity of sulfur and sulfur compounds, ferrous iron and sulfide minerals (e.g.: pyrite). This strain is also autotrophic and tolerant to heavy metals, thus, it can grow under adverse conditions for most forms of life with a low nutrient demand, conditions that are commonly found in mining environments. In this work we analyzed the genome of Acidianus copahuensis and describe the genetic pathways involved in biomining processes. We identified the enzymes that are most likely involved in growth on sulfur and ferrous iron oxidation as well as those involved in autotrophic carbon fixation. We also found that A. copahuensis genome gathers different features that are only present in particular lineages or species from the order Sulfolobales, some of which are involved in biomining. We found that although most of its genes (81%) were found in at least one other Sulfolobales species, it is not specifically closer to any particular species (60-70% of proteins shared with each of them). Although almost one fifth of A. copahuensis proteins are not found in any other Sulfolobales species, most of them corresponded to hypothetical proteins from uncharacterized metabolisms. In this work we identified the genes responsible for the

  13. The genealogy and genetic viability of reintroduced Yellowstone grey wolves.

    PubMed

    Vonholdt, Bridgett M; Stahler, Daniel R; Smith, Douglas W; Earl, Dent A; Pollinger, John P; Wayne, Robert K

    2008-01-01

    The recovery of the grey wolf in Yellowstone National Park is an outstanding example of a successful reintroduction. A general question concerning reintroduction is the degree to which genetic variation has been preserved and the specific behavioural mechanisms that enhance the preservation of genetic diversity and reduce inbreeding. We have analysed 200 Yellowstone wolves, including all 31 founders, for variation in 26 microsatellite loci over the 10-year reintroduction period (1995-2004). The population maintained high levels of variation (1995 H(0) = 0.69; 2004 H(0) = 0.73) with low levels of inbreeding (1995 F(IS) = -0.063; 2004 F(IS) = -0.051) and throughout, the population expanded rapidly (N(1995) = 21; N(2004) = 169). Pedigree-based effective population size ratios did not vary appreciably over the duration of population expansion (1995 N(e)/N(g) = 0.29; 2000 N(e)/N(g) = 0.26; 2004 N(e)/N(g) = 0.33). We estimated kinship and found only two of 30 natural breeding pairs showed evidence of being related (average r = -0.026, SE = 0.03). We reconstructed the genealogy of 200 wolves based on genetic and field data and discovered that they avoid inbreeding through a wide variety of behavioural mechanisms including absolute avoidance of breeding with related pack members, male-biased dispersal to packs where they breed with nonrelatives, and female-biased subordinate breeding. We documented a greater diversity of such population assembly patterns in Yellowstone than previously observed in any other natural wolf population. Inbreeding avoidance is nearly absolute despite the high probability of within-pack inbreeding opportunities and extensive interpack kinship ties between adjacent packs. Simulations showed that the Yellowstone population has levels of genetic variation similar to that of a population managed for high variation and low inbreeding, and greater than that expected for random breeding within packs or across the entire breeding pool. Although short

  14. Streamflow statistics for unregulated and regulated conditions for selected locations on the Upper Yellowstone and Bighorn Rivers, Montana and Wyoming, 1928-2002

    USGS Publications Warehouse

    Chase, Katherine J.

    2014-01-01

    Major floods in 1996 and 1997 intensified public debate about the effects of human activities on the Yellowstone River. In 1999, the Yellowstone River Conservation District Council was formed to address conservation issues on the river. The Yellowstone River Conservation District Council partnered with the U.S. Army Corps of Engineers to carry out a cumulative effects study on the main stem of the Yellowstone River. The cumulative effects study is intended to provide a basis for future management decisions within the watershed. Streamflow statistics, such as flow-frequency data calculated for unregulated and regulated streamflow conditions, are a necessary component of the cumulative effects study. The U.S. Geological Survey, in cooperation with the Yellowstone River Conservation District Council and the U.S. Army Corps of Engineers, calculated low-flow frequency data and general monthly and annual statistics for unregulated and regulated streamflow conditions for the Upper Yellowstone and Bighorn Rivers for the 1928–2002 study period; these data are presented in this report. Unregulated streamflow represents flow conditions during the 1928–2002 study period if there had been no water-resources development in the Yellowstone River Basin. Regulated streamflow represents estimates of flow conditions during the 1928–2002 study period if the level of water-resources development existing in 2002 was in place during the entire study period.

  15. Invasion of American bullfrogs along the Yellowstone River

    USGS Publications Warehouse

    Sepulveda, Adam; Layhee, Megan J.; Stagliano, Dave; Chaffin, Jake; Begley, Allison; Maxell, Bryce A.

    2015-01-01

    The American bullfrog (Lithobates catesbeianus) is a globally distributed invasive species that was introduced to the Yellowstone River floodplain of Montana. Knowledge about floodplain habitat features that allow for bullfrog persistence and spread will help identify effective control strategies. We used field surveys in 2010, 2012 and 2013 to describe bullfrog spread in the Yellowstone River floodplain and the habitat features that are associated with bullfrog occupancy and colonization. Bullfrogs in our study area expanded from ~ 60 km in 2010 to 106 km in 2013, and are spreading to up- and downstream habitats. The number of breeding sites (i.e., presence of bullfrog eggs or larvae) increased from 12 sites in 2010 to 45 sites in 2013. We found that bullfrogs were associated with deeper waters, emergent vegetation and public-access sites, which are habitat features that characterize permanent waters and describe human-mediated introductions. Control strategies that reduce the hydroperiod of breeding sites may help to limit bullfrog persistence and spread, while an increase in public outreach and education may help prevent further bullfrog introductions at public-access sites.

  16. Modeling ash fall distribution from a Yellowstone supereruption

    USGS Publications Warehouse

    Mastin, Larry G.; Van Eaton, Alexa R.; Lowenstern, Jacob B.

    2014-01-01

    We used the volcanic ash transport and dispersion model Ash3d to estimate the distribution of ashfall that would result from a modern-day Plinian supereruption at Yellowstone volcano. The simulations required modifying Ash3d to consider growth of a continent-scale umbrella cloud and its interaction with ambient wind fields. We simulated eruptions lasting 3 days, 1 week, and 1 month, each producing 330 km3 of volcanic ash, dense-rock equivalent (DRE). Results demonstrate that radial expansion of the umbrella cloud is capable of driving ash upwind (westward) and crosswind (N-S) in excess of 1500 km, producing more-or-less radially symmetric isopachs that are only secondarily modified by ambient wind. Deposit thicknesses are decimeters to meters in the northern Rocky Mountains, centimeters to decimeters in the northern Midwest, and millimeters to centimeters on the East, West, and Gulf Coasts. Umbrella cloud growth may explain the extremely widespread dispersal of the ∼640 ka and 2.1 Ma Yellowstone tephra deposits in the eastern Pacific, northeastern California, southern California, and South Texas.

  17. An Evolutionary Network of Genes Present in the Eukaryote Common Ancestor Polls Genomes on Eukaryotic and Mitochondrial Origin

    PubMed Central

    Thiergart, Thorsten; Landan, Giddy; Schenk, Marc; Dagan, Tal; Martin, William F.

    2012-01-01

    To test the predictions of competing and mutually exclusive hypotheses for the origin of eukaryotes, we identified from a sample of 27 sequenced eukaryotic and 994 sequenced prokaryotic genomes 571 genes that were present in the eukaryote common ancestor and that have homologues among eubacterial and archaebacterial genomes. Maximum-likelihood trees identified the prokaryotic genomes that most frequently contained genes branching as the sister to the eukaryotic nuclear homologues. Among the archaebacteria, euryarchaeote genomes most frequently harbored the sister to the eukaryotic nuclear gene, whereas among eubacteria, the α-proteobacteria were most frequently represented within the sister group. Only 3 genes out of 571 gave a 3-domain tree. Homologues from α-proteobacterial genomes that branched as the sister to nuclear genes were found more frequently in genomes of facultatively anaerobic members of the rhiozobiales and rhodospirilliales than in obligate intracellular ricketttsial parasites. Following α-proteobacteria, the most frequent eubacterial sister lineages were γ-proteobacteria, δ-proteobacteria, and firmicutes, which were also the prokaryote genomes least frequently found as monophyletic groups in our trees. Although all 22 higher prokaryotic taxa sampled (crenarchaeotes, γ-proteobacteria, spirochaetes, chlamydias, etc.) harbor genes that branch as the sister to homologues present in the eukaryotic common ancestor, that is not evidence of 22 different prokaryotic cells participating at eukaryote origins because prokaryotic “lineages” have laterally acquired genes for more than 1.5 billion years since eukaryote origins. The data underscore the archaebacterial (host) nature of the eukaryotic informational genes and the eubacterial (mitochondrial) nature of eukaryotic energy metabolism. The network linking genes of the eukaryote ancestor to contemporary homologues distributed across prokaryotic genomes elucidates eukaryote gene origins in a

  18. Endosymbiosis and Eukaryotic Cell Evolution.

    PubMed

    Archibald, John M

    2015-10-05

    Understanding the evolution of eukaryotic cellular complexity is one of the grand challenges of modern biology. It has now been firmly established that mitochondria and plastids, the classical membrane-bound organelles of eukaryotic cells, evolved from bacteria by endosymbiosis. In the case of mitochondria, evidence points very clearly to an endosymbiont of α-proteobacterial ancestry. The precise nature of the host cell that partnered with this endosymbiont is, however, very much an open question. And while the host for the cyanobacterial progenitor of the plastid was undoubtedly a fully-fledged eukaryote, how - and how often - plastids moved from one eukaryote to another during algal diversification is vigorously debated. In this article I frame modern views on endosymbiotic theory in a historical context, highlighting the transformative role DNA sequencing played in solving early problems in eukaryotic cell evolution, and posing key unanswered questions emerging from the age of comparative genomics. Copyright © 2015 Elsevier Ltd. All rights reserved.

  19. 75 FR 54419 - Environmental Impact Statement: Yellowstone County, MT

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-09-07

    ... be prepared for a proposed highway project in Yellowstone County, Montana. FOR FURTHER INFORMATION... that an EIS will be prepared on the re-scoped, proposed project. These improvements are considered... be prepared for a proposal to construct a bypass route north of the city of Billings. Funding...

  20. Use of lodgepole pine cover types by Yellowstone grizzly bears

    USGS Publications Warehouse

    Mattson, D.J.

    1997-01-01

    Lodgepole pine (Pinus contorta) forests are a large and dynamic part of grizzly bear (Ursus arctos) habitat in the Yellowstone ecosystem. Research in other areas suggests that grizzly bears select for young open forest stands, especially for grazing and feeding on berries. Management guidelines accordingly recommend timber harvest as a technique for improving habitat in areas potentially dominated by lodgepole pine. In this paper I examine grizzly bear use of lodgepole pine forests in the Yellowstone area, and test several hypotheses with relevance to a new generation of management guidelines. Differences in grizzly bear selection of lodgepole pine cover types (defined on the basis of stand age and structure) were not pronounced. Selection furthermore varied among years, areas, and individuals. Positive selection for any lodgepole pine type was uncommon. Estimates of selection took 5-11 years or 4-12 adult females to stabilize, depending upon the cover type. The variances of selection estimates tended to stabilize after 3-5 sample years, and were more-or-less stable to slightly increasing with progressively increased sample area. There was no conclusive evidence that Yellowstone's grizzlies favored young (<40 yr) stands in general or for their infrequent use of berries. On the other hand, these results corroborated previous observations that grizzlies favored open and/or young stands on wet and fertile sites for grazing. These results also supported the proposition that temporally and spatially robust inferences require extensive, long-duration studies, especially for wide-ranging vertebrates like grizzly bears.

  1. Willow on Yellowstone's northern range: evidence for a trophic cascade?

    PubMed

    Beyer, Hawthorne L; Merrill, Evelyn H; Varley, Nathan; Boyce, Mark S

    2007-09-01

    Reintroduction of wolves (Canis lupus) to Yellowstone National Park in 1995-1996 has been argued to promote a trophic cascade by altering elk (Cervus elaphus) density, habitat-selection patterns, and behavior that, in turn, could lead to changes within the plant communities used by elk. We sampled two species of willow (Salix boothii and S. geyeriana) on the northern winter range to determine whether (1) there was quantitative evidence of increased willow growth following wolf reintroduction, (2) browsing by elk affected willow growth, and (3) any increase in growth observed was greater than that expected by climatic and hydrological factors alone, thereby indicating a trophic cascade caused by wolves. Using stem sectioning techniques to quantify historical growth patterns we found an approximately twofold increase in stem growth-ring area following wolf reintroduction for both species of willow. This increase could not be explained by climate and hydrological factors alone; the presence of wolves on the landscape was a significant predictor of stem growth above and beyond these abiotic factors. Growth-ring area was positively correlated with the previous year's ring area and negatively correlated with the percentage of twigs browsed from the stem during the winter preceding growth, indicating that elk browse impeded stem growth. Our results are consistent with the hypothesis of a behaviorally mediated trophic cascade on Yellowstone's northern winter range following wolf reintroduction. We suggest that the community-altering effects of wolf restoration are an endorsement of ecological-process management in Yellowstone National Park.

  2. Multiscale Genetic Structure of Yellowstone Cutthroat Trout in the Upper Snake River Basin.

    DOE Office of Scientific and Technical Information (OSTI.GOV)

    Cegelski, Christine C.; Campbell, Matthew R.

    2006-05-30

    Populations of Yellowstone cutthroat trout Oncorhynchus clarkii bouvierii have declined throughout their native range as a result of habitat fragmentation, overharvest, and introductions of nonnative trout that have hybridized with or displaced native populations. The degree to which these factors have impacted the current genetic population structure of Yellowstone cutthroat trout populations is of primary interest for their conservation. In this study, we examined the genetic diversity and genetic population structure of Yellowstone cutthroat trout in Idaho and Nevada with data from six polymorphic microsatellite loci. A total of 1,392 samples were analyzed from 45 sample locations throughout 11 majormore » river drainages. We found that levels of genetic diversity and genetic differentiation varied extensively. The Salt River drainage, which is representative of the least impacted migration corridors in Idaho, had the highest levels of genetic diversity and low levels of genetic differentiation. High levels of genetic differentiation were observed at similar or smaller geographic scales in the Portneuf River, Raft River, and Teton River drainages, which are more altered by anthropogenic disturbances. Results suggested that Yellowstone cutthroat trout are naturally structured at the major river drainage level but that habitat fragmentation has altered this structuring. Connectivity should be restored via habitat restoration whenever possible to minimize losses in genetic diversity and to preserve historical processes of gene flow, life history variation, and metapopulation dynamics. However, alternative strategies for management and conservation should also be considered in areas where there is a strong likelihood of nonnative invasions or extensive habitat fragmentation that cannot be easily ameliorated.« less

  3. The archaebacterial origin of eukaryotes.

    PubMed

    Cox, Cymon J; Foster, Peter G; Hirt, Robert P; Harris, Simon R; Embley, T Martin

    2008-12-23

    The origin of the eukaryotic genetic apparatus is thought to be central to understanding the evolution of the eukaryotic cell. Disagreement about the source of the relevant genes has spawned competing hypotheses for the origins of the eukaryote nuclear lineage. The iconic rooted 3-domains tree of life shows eukaryotes and archaebacteria as separate groups that share a common ancestor to the exclusion of eubacteria. By contrast, the eocyte hypothesis has eukaryotes originating within the archaebacteria and sharing a common ancestor with a particular group called the Crenarchaeota or eocytes. Here, we have investigated the relative support for each hypothesis from analysis of 53 genes spanning the 3 domains, including essential components of the eukaryotic nucleic acid replication, transcription, and translation apparatus. As an important component of our analysis, we investigated the fit between model and data with respect to composition. Compositional heterogeneity is a pervasive problem for reconstruction of ancient relationships, which, if ignored, can produce an incorrect tree with strong support. To mitigate its effects, we used phylogenetic models that allow for changing nucleotide or amino acid compositions over the tree and data. Our analyses favor a topology that supports the eocyte hypothesis rather than archaebacterial monophyly and the 3-domains tree of life.

  4. Earthshots: Satellite images of environmental change – Yellowstone National Park, USA

    USGS Publications Warehouse

    Adamson, Thomas

    2014-01-01

    Yellowstone is representative of temperate mountain ecosystems throughout western North America. What is learned from the massive 1988 fires and subsequent recovery of these ecosystems can be applied to other regions.

  5. Examining winter visitor use in Yellowstone National Park

    Treesearch

    Mae A. Davenport; Wayne A. Freimund; William T. Borrie; Robert E. Manning; William A. Valliere; Benjamin Wang

    2000-01-01

    This research was designed to assist the managers of Yellowstone National Park (YNP) in their decision making about winter visitation. The focus of this report is on winter use patterns and winter visitor preferences. It is the author’s hope that this information will benefit both the quality of winter experiences and the stewardship of the park resources. This report...

  6. Models of lithosphere and asthenosphere anisotropic structure of the Yellowstone hot spot from shear wave splitting

    USGS Publications Warehouse

    Waite, Gregory P.; Schutt, D.L.; Smith, Robert B.

    2005-01-01

    Teleseismic shear wave splitting measured at 56 continuous and temporary seismographs deployed in a 500 km by 600 km area around the Yellowstone hot spot indicates that fast anisotropy in the mantle is parallel to the direction of plate motion under most of the array. The average split time from all stations of 0.9 s is typical of continental stations. There is little evidence for plume-induced radial strain, suggesting that any contribution of gravitationally spreading plume material is undetectably small with respect to the plate motion velocity. Two stations within Yellowstone have splitting measurements indicating the apparent fast anisotropy direction (ϕ) is nearly perpendicular to plate motion. These stations are ∼30 km from stations with ϕ parallel to plate motion. The 70° rotation over 30 km suggests a shallow source of anisotropy; however, split times for these stations are more than 2 s. We suggest melt-filled, stress-oriented cracks in the lithosphere are responsible for the anomalous ϕ orientations within Yellowstone. Stations southeast of Yellowstone have measurements of ϕ oriented NNW to WNW at high angles to the plate motion direction. The Archean lithosphere beneath these stations may have significant anisotropy capable of producing the observed splitting.

  7. Geodynamics Of The Yellowstone Hotspot From S Eismic And Gps Imaging: Progress Report

    NASA Astrophysics Data System (ADS)

    Smith, R. B.; Humphreys, E.; Dueker, K.; Tackley, P.; Waite, G.; Schutt, D.; Hernland, J.

    An integrated study of the Yellowstone hotspot and it's interaction with the continental lithosphere is focused on understanding the evolution and effects of plume interaction with the continental lithosphere. Our basic goal is to develop a unified dynamic model of the Yellowstone hotspot and to resolve the question of whether there it has a deep mantle plume source. The 800-km-track of the 16Myr. Yellowstone-Snake River Plain (YSRP) volcanic system extends NE across the western U.S. with associated active seismicity and faulting. We will discuss the initial results of seismic tomography experiments: 1) an 80-instrument, NW-SE trending 500 km x 400 km broadband and high frequency array centered over Yellowstone planned to resolve structural geometry and composition of a presumed mantle plume and to record presumed plume-penetrating rays to ~600 km depth; and 2) an array of ~350 seismic stations of regional seismic networks focusing on the magmatically modified crust using local earthquake and controlled sources. Crustal deformation was assessed by 160-station campaign GPS surveys (1987-2000) complimented by a 15-station permanent GPS network planned to resolve the velocity vectors around the hotspot needed for kinematic and dynamic modeling. Initial tomographic results reveal a low-velocity, upper-crustal body beneath Yellowstone, interpreted to be the source of its active silicic volcanism; conversely, a high-velocity mid crustal body extends along the cooled hotspot track is interpreted to an Fe-rich residuum of the rhyolitic-basaltic volcanism. Teleseismic images within the Yellowstone swell that, combined with isostatic considerations, suggests that convective overturn has left partially molten mantle beneath the hotspot track to depths of about 180 km, and depleted residuum beneath the swell adjacent to the hotspot track. Also the fast axis of mantle anisotropy is oriented in the direction of plate transport; this differs from the anisotropy away from the

  8. Taming of a Wild Research Well in Yellowstone National Park during November 1992

    USGS Publications Warehouse

    Fournier, Robert O.; Moore, Michael M.

    2008-01-01

    Much of our current understanding of Yellowstone's geothermal areas comes from research drilling by the USGS during 1967 and 1968. Thirteen wells were drilled in thermal areas around the park. Scientists collected waters and rocks, measured temperatures and pressures and performed other tests to characterize the shallow subsurface at Yellowstone. Most wells were plugged and abandoned, but a few were left open for future scientific tests and sampling. One of those wells, the Y8, was located at Biscuit Basin, 2 miles north of Old Faithful. In November 1992, a valve at the ground surface failed, leading to a blowout, an uncontrolled eruption of steam and hot water. The USGS and Yellowstone National Park worked with a drilling contractor to control the flow and plug the well. The lead scientist, Robert Fournier, used video taken by the drilling contractor, Tonto Services, to create this fascinating 28-minute-long film. It is followed by a short news story by CNN, also from November 1992. Fifteen years later, we felt that the video was of sufficient scientific and historical interest that it was worth publishing as a USGS Open-file report, where it can be accessed into the future. Enjoy!

  9. Sagebrush-ungulate relationships on the Northern Yellowstone Winter Range

    Treesearch

    Carl L. Wambolt

    2005-01-01

    Sagebrush (Artemisia) taxa have historically been the landscape dominants over much of the Northern Yellowstone Winter Range (NYWR). Their importance to the unnaturally large ungulate populations on the NYWR throughout the twentieth century has been recognized since the 1920s. Sagebrush-herbivore ecology has been the focus of research on the NYWR for...

  10. Delineating Spatial Patterns in the Yellowstone Hydrothermal System using Geothermometry

    NASA Astrophysics Data System (ADS)

    King, J.; Hurwitz, S.; Lowenstern, J. B.

    2015-12-01

    Yellowstone National Park is unmatched with regard to its quantity of active hydrothermal features. Origins of thermal waters in its geyser basins have been traced to mixing of a deep parent water with meteoric waters in shallow local reservoirs (Fournier, 1989). A mineral-solution equilibrium model was developed to calculate water-rock chemical re-equilibration temperatures in these shallow reservoirs. We use the GeoT program, which uses water composition data as input to calculate saturation indices of selected minerals; the "best-clustering" minerals are then statistically determined to infer reservoir temperatures (Spycher et al., 2013). We develop the method using water composition data from Heart Lake Geyser Basin (HLGB), for which both chemical and isotopic geothermometers predict a reservoir water temperature of 205°C ± 10°C (Lowenstern et al., 2012), and minerals found in drill cores in Yellowstone's geyser basins. We test the model for sensitivity to major element composition, pH, Total Inorganic Carbon (TIC) and selected minerals to optimize model parameters. Calculated temperatures are most accurate at pH values below 9.0, and closely match the equilibrium saturation indices of quartz, stilbite, microcline, and albite. The model is optimized with a TIC concentration that is consistent with the mass of diffuse CO2 flux in HLGB (Lowenstern et al., 2012). We then use water compositions from other thermal basins in Yellowstone in search of spatial variations in reservoir temperatures. We then compare the calculated temperatures with various SiO2 and cation geothermometers.

  11. Grizzly bear management in Yellowstone National Park: The heart of recovery in the Yellowstone Ecosystem

    USGS Publications Warehouse

    Schwartz, C.C.; Gunther, K.; McCullough, Dale R.; Kaji, Koichi; Yamanaka, Masami

    2006-01-01

    Grizzly bear (Ursus arctos) management in the Greater Yellowstone Ecosystem (GYE) in the past quarter century has resulted in more than doubling of the population from around 200 to more than 500, expansion of range back into habitats where the bear has extirpated more than a century ago, and a move toward removal from the U.S. Endangered Species list. At the center of this success story are the management programs in Yellowstone National Park (YNP). Regulations that restrict human activity, camping, and food storage, elimination of human food and garbage as attractants, and ranger attendance of roadside bears have all resulted in the population of grizzlies in YNP approaching carrying capacity. Recent studies suggest, however, that YNP alone is too small to support the current population, making management beyond the park boundary important and necessary to the demographics of the population as a whole. Demographic analyses suggest a source-sink dynamic exists within the GYE, with YNP and lands outside the park within the Grizzly Bear Recovery Zone (RZ) representing source habitats, whereas lands beyond the RZ constitute sinks. The source-sink demography in the GYE is indicative of carnivore conservation issues worldwide where many national parks or preserves designed to protect out natural resources are inadequate in size or shape to provide all necessary life history requirements for these wide-ranging species. Additionally, wide-ranging behavior and long-distance dispersal seem inherent to large carnivores, so mortality around the edges is virtually inevitable, and conservation in the GYE is inextricably linked to management regimes not only within YNP, but within the GYE as a whole. We discuss those needs here.

  12. Mapping temperature and radiant geothermal heat flux anomalies in the Yellowstone geothermal system using ASTER thermal infrared data

    USGS Publications Warehouse

    Vaughan, R. Greg; Lowenstern, Jacob B.; Keszthelyi, Laszlo P.; Jaworowski, Cheryl; Heasler, Henry

    2012-01-01

    The purpose of this work was to use satellite-based thermal infrared (TIR) remote sensing data to measure, map, and monitor geothermal activity within the Yellowstone geothermal area to help meet the missions of both the U.S. Geological Survey Yellowstone Volcano Observatory and the Yellowstone National Park Geology Program. Specifically, the goals were to: 1) address the challenges of remotely characterizing the spatially and temporally dynamic thermal features in Yellowstone by using nighttime TIR data from the Advanced Spaceborne Thermal Emission and Reflection Radiometer (ASTER) and 2) estimate the temperature, geothermal radiant emittance, and radiant geothermal heat flux (GHF) for Yellowstone’s thermal areas (both Park wide and for individual thermal areas). ASTER TIR data (90-m pixels) acquired at night during January and February, 2010, were used to estimate surface temperature, radiant emittance, and radiant GHF from all of Yellowstone’s thermal features, produce thermal anomaly maps, and update field-based maps of thermal areas. A background subtraction technique was used to isolate the geothermal component of TIR radiance from thermal radiance due to insolation. A lower limit for the Yellowstone’s total radiant GHF was established at ~2.0 GW, which is ~30-45% of the heat flux estimated through geochemical (Cl-flux) methods. Additionally, about 5 km2 was added to the geodatabase of mapped thermal areas. This work provides a framework for future satellite-based thermal monitoring at Yellowstone as well as exploration of other volcanic / geothermal systems on a global scale.

  13. Monitoring changes in Greater Yellowstone Lake water quality following the 1988 wildfires

    NASA Technical Reports Server (NTRS)

    Lathrop, Richard G., Jr.; Vande Castle, John D.; Brass, James A.

    1994-01-01

    The fires that burned the Greater Yellowstone Area (GYA) during the summer of 1988 were the largest ever recorded for the region. Wildfire can have profound indirect effects on associated aquatic ecosystems by increased nutrient loading, sediment, erosion, and runoff. Satellite remote sensing and water quality sampling were used to compare pre- versus post-fire conditions in the GYA's large oliotrophic (high transparency, low productivity) lakes. Inputs of suspended sediment to Jackson Lake appear to have increased. Yellowstone Lake has not shown any discernable shift in water quality. The insights gained separately from the Landsat Thematic and NOAA Advanced Very High Resolution Radiometer (AVHRR) remote sensing systems, along with conventional in-situ sampling, can be combined into a useful water quality monitoring tool.

  14. Grizzly bear use of army cutworm moths in the Yellowstone Ecosystem

    USGS Publications Warehouse

    French, Steven P.; French, Marilynn G.; Knight, Richard R.

    1994-01-01

    The ecology of alpine aggregations of army cutworm moths (Euxoa auxiliaris) and the feeding behavior of grizzly bears (Ursus arctos horribilis) at these areas were studied in the Yellowstone ecosystem from 1988 to 1991. Army cutworm moths migrate to mountain regions each summer to feed at night on the nectar of alpine and subalpine flowers, and during the day they seek shelter under various rock formations. Grizzly bears were observed feeding almost exclusively on moths up to 3 months each summer at the 10 moth-aggregation areas we identified. Fifty-one different grizzly bears were observed feeding at 4 of these areas during a single day in August 1991. Army cutworm moths are a preferred source of nutrition for many grizzly bears in the Yellowstone ecosystem and represent a high quality food that is available during hyperphagia.

  15. Trumpeter swan food habitats in the greater Yellowstone ecosystem

    Treesearch

    John R. Squires; Stanley H. Anderson

    1995-01-01

    We documented the winter, spring and summer food habits of trumpeter swans (Cygnus buccinator) in the greater Yellowstone area (the intersection of Idaho, Montana and Wyoming) and studied the diet preference of nesting swans. Although 23 foods were detected in trumpeter swan diets during the winter, spring and summer, only 8 contributed at least 3% to the diet...

  16. Exterior sound level measurements of over-snow vehicles at Yellowstone National Park.

    DOT National Transportation Integrated Search

    2008-09-30

    Sounds associated with oversnow vehicles, such as snowmobiles and snowcoaches, are an : important management concern at Yellowstone and Grand Teton National Parks. The John A. : Volpe National Transportation Systems Centers Environmental Measureme...

  17. The COG database: an updated version includes eukaryotes

    PubMed Central

    Tatusov, Roman L; Fedorova, Natalie D; Jackson, John D; Jacobs, Aviva R; Kiryutin, Boris; Koonin, Eugene V; Krylov, Dmitri M; Mazumder, Raja; Mekhedov, Sergei L; Nikolskaya, Anastasia N; Rao, B Sridhar; Smirnov, Sergei; Sverdlov, Alexander V; Vasudevan, Sona; Wolf, Yuri I; Yin, Jodie J; Natale, Darren A

    2003-01-01

    Background The availability of multiple, essentially complete genome sequences of prokaryotes and eukaryotes spurred both the demand and the opportunity for the construction of an evolutionary classification of genes from these genomes. Such a classification system based on orthologous relationships between genes appears to be a natural framework for comparative genomics and should facilitate both functional annotation of genomes and large-scale evolutionary studies. Results We describe here a major update of the previously developed system for delineation of Clusters of Orthologous Groups of proteins (COGs) from the sequenced genomes of prokaryotes and unicellular eukaryotes and the construction of clusters of predicted orthologs for 7 eukaryotic genomes, which we named KOGs after eukaryotic orthologous groups. The COG collection currently consists of 138,458 proteins, which form 4873 COGs and comprise 75% of the 185,505 (predicted) proteins encoded in 66 genomes of unicellular organisms. The eukaryotic orthologous groups (KOGs) include proteins from 7 eukaryotic genomes: three animals (the nematode Caenorhabditis elegans, the fruit fly Drosophila melanogaster and Homo sapiens), one plant, Arabidopsis thaliana, two fungi (Saccharomyces cerevisiae and Schizosaccharomyces pombe), and the intracellular microsporidian parasite Encephalitozoon cuniculi. The current KOG set consists of 4852 clusters of orthologs, which include 59,838 proteins, or ~54% of the analyzed eukaryotic 110,655 gene products. Compared to the coverage of the prokaryotic genomes with COGs, a considerably smaller fraction of eukaryotic genes could be included into the KOGs; addition of new eukaryotic genomes is expected to result in substantial increase in the coverage of eukaryotic genomes with KOGs. Examination of the phyletic patterns of KOGs reveals a conserved core represented in all analyzed species and consisting of ~20% of the KOG set. This conserved portion of the KOG set is much greater

  18. Inquiry-based Science Activities Using The Infrared Zoo and Infrared Yellowstone Resources at Cool Cosmos

    NASA Astrophysics Data System (ADS)

    Daou, D.; Gauthier, A.

    2003-12-01

    Inquiry-based activities that utilize the Cool Cosmos image galleries have been designed and developed by K12 teachers enrolled in The Invisible Universe Online for Teachers course. The exploration activities integrate the Our Infrared World Gallery (http://coolcosmos.ipac.caltech.edu/image_galleries/our_ir_world_gallery.html) with either the Infrared Zoo gallery (http://coolcosmos.ipac.caltech.edu/image_galleries/ir_zoo/index.html) or the Infrared Yellowstone image http://coolcosmos.ipac.caltech.edu/image_galleries/ir_yellowstone/index.html) and video (http://coolcosmos.ipac.caltech.edu/videos/ir_yellowstone/index.html) galleries. Complete instructor guides have been developed for the activities and will be presented by the authors in poster and CD form. Although the activities are written for middle and highschool learners, they can easily be adapted for college audiences. The Our Infrared World Gallery exploration helps learners think critically about visible light and infrared light as they compare sets of images (IR and visible light) of known objects. For example: by taking a regular photograph of a running faucet, can you tell if it is running hot or cold water? What new information does the IR image give you? The Infrared Zoo activities encourage learners to investigate the differences between warm and cold blooded animals by comparing sets of IR and visible images. In one activity, learners take on the role of a pit viper seeking prey in various desert and woodland settings. The main activities are extended into the real world by discussing and researching industrial, medical, and societal applications of infrared technologies. The Infrared Yellowstone lessons give learners a unique perspective on Yellowstone National Park and it's spectacular geologic and geothermal features. Infrared video technology is highlighted as learners make detailed observations about the visible and infrared views of the natural phenomena. The "Cool Cosmos" EPO activities are

  19. Methylmercury enters an aquatic food web through acidophilic microbial mats in Yellowstone National Park, Wyoming.

    PubMed

    Boyd, Eric S; King, Susan; Tomberlin, Jeffery K; Nordstrom, D Kirk; Krabbenhoft, David P; Barkay, Tamar; Geesey, Gill G

    2009-04-01

    Microbial mats are a visible and abundant life form inhabiting the extreme environments in Yellowstone National Park (YNP), WY, USA. Little is known of their role in food webs that exist in the Park's geothermal habitats. Eukaryotic green algae associated with a phototrophic green/purple Zygogonium microbial mat community that inhabits low-temperature regions of acidic (pH approximately 3.0) thermal springs were found to serve as a food source for stratiomyid (Diptera: Stratiomyidae) larvae. Mercury in spring source water was taken up and concentrated by the mat biomass. Monomethylmercury compounds (MeHg(+)), while undetectable or near the detection limit (0.025 ng l(-1)) in the source water of the springs, was present at concentrations of 4-7 ng g(-1) dry weight of mat biomass. Detection of MeHg(+) in tracheal tissue of larvae grazing the mat suggests that MeHg(+) enters this geothermal food web through the phototrophic microbial mat community. The concentration of MeHg(+) was two to five times higher in larval tissue than mat biomass indicating MeHg(+) biomagnification occurred between primary producer and primary consumer trophic levels. The Zygogonium mat community and stratiomyid larvae may also play a role in the transfer of MeHg(+) to species in the food web whose range extends beyond a particular geothermal feature of YNP.

  20. Eukaryotic organisms in Proterozoic oceans

    PubMed Central

    Knoll, A.H; Javaux, E.J; Hewitt, D; Cohen, P

    2006-01-01

    The geological record of protists begins well before the Ediacaran and Cambrian diversification of animals, but the antiquity of that history, its reliability as a chronicle of evolution and the causal inferences that can be drawn from it remain subjects of debate. Well-preserved protists are known from a relatively small number of Proterozoic formations, but taphonomic considerations suggest that they capture at least broad aspects of early eukaryotic evolution. A modest diversity of problematic, possibly stem group protists occurs in ca 1800–1300 Myr old rocks. 1300–720 Myr fossils document the divergence of major eukaryotic clades, but only with the Ediacaran–Cambrian radiation of animals did diversity increase within most clades with fossilizable members. While taxonomic placement of many Proterozoic eukaryotes may be arguable, the presence of characters used for that placement is not. Focus on character evolution permits inferences about the innovations in cell biology and development that underpin the taxonomic and morphological diversification of eukaryotic organisms. PMID:16754612

  1. Density-dependent intraspecific aggression regulates survival in northern Yellowstone wolves (Canis lupus).

    PubMed

    Cubaynes, Sarah; MacNulty, Daniel R; Stahler, Daniel R; Quimby, Kira A; Smith, Douglas W; Coulson, Tim

    2014-11-01

    Understanding the population dynamics of top-predators is essential to assess their impact on ecosystems and to guide their management. Key to this understanding is identifying the mechanisms regulating vital rates. Determining the influence of density on survival is necessary to understand the extent to which human-caused mortality is compensatory or additive. In wolves (Canis lupus), empirical evidence for density-dependent survival is lacking. Dispersal is considered the principal way in which wolves adjust their numbers to prey supply or compensate for human exploitation. However, studies to date have primarily focused on exploited wolf populations, in which density-dependent mechanisms are likely weak due to artificially low wolf densities. Using 13 years of data on 280 collared wolves in Yellowstone National Park, we assessed the effect of wolf density, prey abundance and population structure, as well as winter severity, on age-specific survival in two areas (prey-rich vs. prey-poor) of the national park. We further analysed cause-specific mortality and explored the factors driving intraspecific aggression in the prey-rich northern area of the park. Overall, survival rates decreased during the study. In northern Yellowstone, density dependence regulated adult survival through an increase in intraspecific aggression, independent of prey availability. In the interior of the park, adult survival was less variable and density-independent, despite reduced prey availability. There was no effect of prey population structure in northern Yellowstone, or of winter severity in either area. Survival was similar among yearlings and adults, but lower for adults older than 6 years. Our results indicate that density-dependent intraspecific aggression is a major driver of adult wolf survival in northern Yellowstone, suggesting intrinsic density-dependent mechanisms have the potential to regulate wolf populations at high ungulate densities. When low prey availability or high

  2. The relative ages of eukaryotes and akaryotes.

    PubMed

    Penny, David; Collins, Lesley J; Daly, Toni K; Cox, Simon J

    2014-12-01

    The Last Eukaryote Common Ancestor (LECA) appears to have the genetics required for meiosis, mitosis, nucleus and nuclear substructures, an exon/intron gene structure, spliceosomes, many centres of DNA replication, etc. (and including mitochondria). Most of these features are not generally explained by models for the origin of the Eukaryotic cell based on the fusion of an Archeon and a Bacterium. We find that the term 'prokaryote' is ambiguous and the non-phylogenetic term akaryote should be used in its place because we do not yet know the direction of evolution between eukaryotes and akaryotes. We use the term 'protoeukaryote' for the hypothetical stem group ancestral eukaryote that took up a bacterium as an endosymbiont that formed the mitochondrion. It is easier to make detailed models with a eukaryote to an akaryote transition, rather than vice versa. So we really are at a phylogenetic impasse in not being confident about the direction of change between eukaryotes and akaryotes.

  3. Algal and Water-Quality Data for the Yellowstone River and Tributaries, Montana and Wyoming, 1999-2000

    USGS Publications Warehouse

    Peterson, David A.

    2009-01-01

    Streams of the Yellowstone River Basin in Montana and Wyoming were sampled as part of the U.S. Geological Survey's National Water-Quality Assessment Program. Algal communities were sampled in 1999 in conjunction with other ecological sampling and in 2000 during synoptic sampling. Water-quality measurements related to the algal sampling included light attenuation and dissolved-oxygen concentrations. Sites were sampled on the main-stem Yellowstone River, major tributaries such as the Clarks Fork Yellowstone River and the Bighorn River, and selected minor tributaries. Some of the data collected, such as the phytoplankton chlorophyll-a data, were referenced or summarized in previous U.S. Geological Survey reports but were not previously published in tabular form, and therefore are presented in this report, prepared in cooperation with the Montana Department of Environmental Quality. Data presented in this report include chlorophyll-a concentrations in phytoplankton and periphyton samples, as well as light attenuation and dissolved-oxygen production data from 1999-2000.

  4. Thermomechanical Modeling of the Formation of a Multilevel, Crustal-Scale Magmatic System by the Yellowstone Plume

    NASA Astrophysics Data System (ADS)

    Colón, D. P.; Bindeman, I. N.; Gerya, T. V.

    2018-05-01

    Geophysical imaging of the Yellowstone supervolcano shows a broad zone of partial melt interrupted by an amagmatic gap at depths of 15-20 km. We reproduce this structure through a series of regional-scale magmatic-thermomechanical forward models which assume that magmatic dikes stall at rheologic discontinuities in the crust. We find that basaltic magmas accumulate at the Moho and at the brittle-ductile transition, which naturally forms at depths of 5-10 km. This leads to the development of a 10- to 15-km thick midcrustal sill complex with a top at a depth of approximately 10 km, consistent with geophysical observations of the pre-Yellowstone hot spot track. We show a linear relationship between melting rates in the mantle and rhyolite eruption rates along the hot spot track. Finally, melt production rates from our models suggest that the Yellowstone plume is 175°C hotter than the surrounding mantle and that the thickness of the overlying lithosphere is 80 km.

  5. Life history characteristics and vital rates of Yellowstone Cutthroat Trout in two headwater basins

    USGS Publications Warehouse

    Uthe, Patrick; Al-Chokhachy, Robert K.; Zale, Alexander V.; Shepard, Bradley B.; McMahon, Thomas E.; Stephens, Tracy

    2016-01-01

    The Yellowstone Cutthroat Trout Oncorhynchus clarkii bouvieri is native to the Rocky Mountains and has declined in abundance and distribution as a result of habitat degradation and introduced salmonid species. Many of its remaining strongholds are in headwater basins with minimal human disturbances. Understanding the life histories, vital rates, and behaviors of Yellowstone Cutthroat Trout within headwater stream networks remains limited yet is critical for effective management and conservation. We estimated annual relative growth in length and weight, annual survival rates, and movement patterns of Yellowstone Cutthroat Trout from three tributaries of Spread Creek, Wyoming, and two tributaries of Shields River, Montana, from 2011 through 2013 using PIT tag antennas within a mark–recapture framework. Mean annual growth rates varied among tributaries and size-classes, but were slow compared with populations of Yellowstone Cutthroat Trout from large, low-elevation streams. Survival rates were relatively high compared with those of other Cutthroat Trout subspecies, but we found an inverse relationship between survival and size, a pattern contrary to what has been reported for Cutthroat Trout in large streams. Mean annual survival rates ranged from 0.32 (SE = 0.04) to 0.68 (SE = 0.05) in the Spread Creek basin and from 0.30 (SE = 0.07) to 0.69 (SE = 0.10) in the Shields River basin. Downstream movements from tributaries were substantial, with as much as 26.5% of a tagging cohort leaving over the course of the study. Integrating our growth, survival, and movement results demonstrates the importance of considering strategies to enhance headwater stream habitats and highlights the importance of connectivity with larger stream networks.

  6. Beaver damming, fluvial geomorphology, and climate in Yellowstone National Park, Wyoming

    NASA Astrophysics Data System (ADS)

    Persico, L.; Meyer, G.

    2008-12-01

    Beaver habitation is an important component of many fluvial landscapes that can impact a variety of hydrologic, geomorphic, and ecologic processes. Beaver damming, via long term valley aggradation, is thought to be important to the postglacial geomorphic evolution of many smaller mountain stream networks in the western United States. Loss of beaver dams can also cause rapid channel incision. Although several studies have documented rapid short-term aggradation of channels behind single beaver dams, there is little actual data on the long-term cumulative effect of beaver damming. In Yellowstone''s Northern Range, field surveys and stratigraphic section along six streams in the Northern Range reveal net thickness of mostly <2 m and patchy distribution of Holocene beaver-pond deposits. We estimate that reaches with clear morphologic and stratigraphic evidence for beaver-related aggradation constitute about 19% of the total stream network length. Reaches with probable and possible beaver-related aggradation make up an additional 8% and 2% of the network, respectively. The remaining 71% of the network has no clear evidence for beaver-related aggradation. Thirty-nine radiocarbon ages on beaver-pond deposits in northern Yellowstone fall primarily within the last 4000 yr, but gaps in dated beaver occupation from 2200-1800 and 950-750 cal yr BP correspond with severe and persistent droughts that likely caused low to ephemeral discharges in smaller streams. In the last two decades, severe drought has also caused streams that were occupied by beaver in the 1920s to become ephemeral. Beaver have been largely absent from the Northern Range since the mid-20th century, probably due to multiple ecological and climatic factors. This loss of beaver is thought to have led to widespread degradation of stream and riparian habitat via channel incision. Although 20th-century beaver loss has caused significant channel incision at some former dam sites, downcutting elsewhere in northern

  7. Fire growth maps for the 1988 Greater Yellowstone Area Fires

    Treesearch

    Richard C. Rothermel; Roberta A Hartford; Carolyn H. Chase

    1994-01-01

    Daily fire growth maps display the growth of the 1988 fires in the Greater Yellowstone Area. Information and data sources included daily infrared photography flights, satellite imagery, ground and aerial reconnaissance, command center intelligence, and the personal recollections of fire behavior observers. Fire position was digitized from topographic maps using GRASS...

  8. Database for the Quaternary and Pliocene Yellowstone Plateau volcanic field of Wyoming, Idaho, and Montana (Database for Professional Paper 729-G)

    USGS Publications Warehouse

    Koch, Richard D.; Ramsey, David W.; Christiansen, Robert L.

    2011-01-01

    The superlative hot springs, geysers, and fumarole fields of Yellowstone National Park are vivid reminders of a recent volcanic past. Volcanism on an immense scale largely shaped the unique landscape of central and western Yellowstone Park, and intimately related tectonism and seismicity continue even now. Furthermore, the volcanism that gave rise to Yellowstone's hydrothermal displays was only part of a long history of late Cenozoic eruptions in southern and eastern Idaho, northwestern Wyoming, and southwestern Montana. The late Cenozoic volcanism of Yellowstone National Park, although long believed to have occurred in late Tertiary time, is now known to have been of latest Pliocene and Pleistocene age. The eruptions formed a complex plateau of voluminous rhyolitic ash-flow tuffs and lavas, but basaltic lavas too have erupted intermittently around the margins of the rhyolite plateau. Volcanism almost certainly will recur in the Yellowstone National Park region. This digital release contains all the information used to produce the geologic maps published as plates in U.S. Geological Survey Professional Paper 729-G (Christiansen, 2001). The main component of this digital release is a geologic map database prepared using geographic information systems (GIS) applications. This release also contains files to view or print the geologic maps and main report text from Professional Paper 729-G.

  9. Crustal Deformation in the Eastern Snake River Plain and Yellowstone Plateau Observed by SAR Interferometry

    NASA Astrophysics Data System (ADS)

    Aly, M. H.; Hughes, S. S.; Rodgers, D. W.; Glenn, N. F.; Thackray, G. D.

    2007-12-01

    The Snake River Plain-Yellowstone tectono-volcanic province was created when North America migrated over a fixed hotspot in the mantle. Synthetic Aperture Radar Interferometry (InSAR) has been applied in this study to address the recent tectono-volcanic activity in the Eastern Snake River Plain (ESRP) and the southwestern part of Yellowstone Plateau. InSAR results show that crustal deformation across the tectono-volcanic province is episodic. An episode of uplift (about 1 cm/yr) along the ESRP axial volcanic zone, directly southwest of Island Park, has been detected from a time-series of independent differential interferograms created for the 1993-2000 period. Episodes of subsidence (1 cm/yr) during 1997-2000 and uplift (3 cm/yr) during 2004-2006 have been also detected in the active Yellowstone caldera, just northeast of Island Park. The detected interferometric signals indicate that deformation across the axial volcanic zone near Island Park is inversely linked to deformation in the active Yellowstone caldera. One explanation is that the inverse motions reflect a flexure response of the ESRP crust to magma chamber activity beneath the active caldera, although other interpretations are possible. The time-series of differential interferograms shows that no regional deformation has occurred across the central part of ESRP during the periods of observations, but local surface displacements of 1-3 cm magnitude have been detected in the adjacent Basin-Range province. Differential surface movements of varying rates have been also detected along Centennial, Madison, and Hebgen faults between 1993 and 2006.

  10. Precambrian Skeletonized Microbial Eukaryotes

    NASA Astrophysics Data System (ADS)

    Lipps, Jere H.

    2017-04-01

    Skeletal heterotrophic eukaryotes are mostly absent from the Precambrian, although algal eukaryotes appear about 2.2 billion years ago. Tintinnids, radiolaria and foraminifera have molecular origins well back into the Precambrian yet no representatives of these groups are known with certainty in that time. These data infer times of the last common ancestors, not the appearance of true representatives of these groups which may well have diversified or not been preserved since those splits. Previous reports of these groups in the Precambrian are misinterpretations of other objects in the fossil record. Reported tintinnids at 1600 mya from China are metamorphic shards or mineral artifacts, the many specimens from 635-715 mya in Mongolia may be eukaryotes but they are not tintinnids, and the putative tintinnids at 580 mya in the Doushantou formation of China are diagenetic alterations of well-known acritarchs. The oldest supposed foraminiferan is Titanotheca from 550 to 565 mya rocks in South America and Africa is based on the occurrence of rutile in the tests and in a few modern agglutinated foraminifera, as well as the agglutinated tests. Neither of these nor the morphology are characteristic of foraminifera; hence these fossils remain as indeterminate microfossils. Platysolenites, an agglutinated tube identical to the modern foraminiferan Bathysiphon, occurs in the latest Neoproterozoic in Russia, Canada, and the USA (California). Some of the larger fossils occurring in typical Ediacaran (late Neoproterozoic) assemblages may be xenophyophorids (very large foraminifera), but the comparison is disputed and flawed. Radiolaria, on occasion, have been reported in the Precambrian, but the earliest known clearly identifiable ones are in the Cambrian. The only certain Precambrian heterotrophic skeletal eukaryotes (thecamoebians) occur in fresh-water rocks at about 750 mya. Skeletonized radiolaria and foraminifera appear sparsely in the Cambrian and radiate in the Ordovician

  11. The others: our biased perspective of eukaryotic genomes

    PubMed Central

    del Campo, Javier; Sieracki, Michael E.; Molestina, Robert; Keeling, Patrick; Massana, Ramon; Ruiz-Trillo, Iñaki

    2015-01-01

    Understanding the origin and evolution of the eukaryotic cell and the full diversity of eukaryotes is relevant to many biological disciplines. However, our current understanding of eukaryotic genomes is extremely biased, leading to a skewed view of eukaryotic biology. We argue that a phylogeny-driven initiative to cover the full eukaryotic diversity is needed to overcome this bias. We encourage the community: (i) to sequence a representative of the neglected groups available at public culture collections, (ii) to increase our culturing efforts, and (iii) to embrace single cell genomics to access organisms refractory to propagation in culture. We hope that the community will welcome this proposal, explore the approaches suggested, and join efforts to sequence the full diversity of eukaryotes. PMID:24726347

  12. Seismic and GPS constraints on the dynamics and kinematics of the Yellowstone volcanic field

    NASA Astrophysics Data System (ADS)

    Smith, R. B.; Farrell, J.; Jordan, M.; Puskas, C.; Waite, G. P.

    2007-12-01

    The seismically and volcanically Yellowstone hotspot resulted from interaction of a mantle plume with the overriding North America plate. This feature and related processes have modified continental lithosphere producing the Yellowstone-Snake River Plain-Newberry silicic volcanic field (YSRPN) system, with its NE volcanically active Yellowstone volcanic field. The size and accessibility of the Yellowstone area has allowed a range of geophysical experiments including earthquake monitoring and seismic and GPS imaging of this system. Seismicity is dominated by small-magnitude normal- to oblique-slip faulting earthquake swarms with shallow focal depths, maximum of ~5 km, restricted by high temperatures and a weak elastic layer. There is developing evidence of non-double couple events. Outside the caldera, earthquakes are deeper, ~20 km, and capable of M 7+ earthquakes. We integrate the results from a multi-institution experiment that recorded data from 110 seismic stations and 180 GPS stations for 1999-2004. The tomographic images confirm the existence of a low Vp-body beneath the Yellowstone caldera at depths greater than 8 km, possibly representing hot, crystallizing magma. A key result of our study is a volume of anomalously low Vp and Vp/Vs in the northwestern part of the volcanic field at shallow depths of <2.0 km. Theoretical calculations of changes in P- to S-wave velocity ratios indicate that these anomalies can be interpreted as porous, gas-filled rock. GPS-measured episodes of caldera kinematics reveals uplift and subsidence of the caldera at decadal scales with average rates of ~20 mm/yr but much higher short-term rates of up to 70 mm/yr of accelerated uplift, 2004-2007. The stress field inverted from seismic and GPS data is dominated by regional SW extension with superimposed volumetric expansion and uplift from local volcanic sources. Mantle tomography derived from integrated inversion of teleseismic and local earthquake data constrained by geoid, crustal

  13. The eukaryotic fossil record in deep time

    NASA Astrophysics Data System (ADS)

    Butterfield, N.

    2011-12-01

    Eukaryotic organisms are defining constituents of the Phanerozoic biosphere, but they also extend well back into the Proterozoic record, primarily in the form of microscopic body fossils. Criteria for identifying pre-Ediacaran eukaryotes include large cell size, morphologically complex cell walls and/or the recognition of diagnostically eukaryotic cell division patterns. The oldest unambiguous eukaryote currently on record is an acanthomorphic acritarch (Tappania) from the Palaeoproterozoic Semri Group of central India. Older candidate eukaryotes are difficult to distinguish from giant bacteria, prokaryotic colonies or diagenetic artefacts. In younger Meso- and Neoproterozoic strata, the challenge is to recognize particular grades and clades of eukaryotes, and to document their macro-evolutionary expression. Distinctive unicellular forms include mid-Neoproterozoic testate amoebae and phosphate biomineralizing 'scale-microfossils' comparable to an extant green alga. There is also a significant record of seaweeds, possible fungi and problematica from this interval, documenting multiple independent experiments in eukaryotic multicellularity. Taxonomically resolved forms include a bangiacean red alga and probable vaucheriacean chromalveolate algae from the late Mesoproterozoic, and populations of hydrodictyacean and siphonocladalean green algae of mid Neoproterozoic age. Despite this phylogenetic breadth, however, or arguments from molecular clocks, there is no convincing evidence for pre-Ediacaran metazoans or metaphytes. The conspicuously incomplete nature of the Proterozoic record makes it difficult to resolve larger-scale ecological and evolutionary patterns. Even so, both body fossils and biomarker data point to a pre-Ediacaran biosphere dominated overwhelming by prokaryotes. Contemporaneous eukaryotes appear to be limited to conspicuously shallow water environments, and exhibit fundamentally lower levels of morphological diversity and evolutionary turnover than

  14. VP and VS structure of the Yellowstone hot spot from teleseismic tomography: Evidence for an upper mantle plume

    USGS Publications Warehouse

    Waite, Gregory P.; Smith, Robert B.; Allen, Richard M.

    2006-01-01

    The movement of the lithosphere over a stationary mantle magmatic source, often thought to be a mantle plume, explains key features of the 16 Ma Yellowstone–Snake River Plain volcanic system. However, the seismic signature of a Yellowstone plume has remained elusive because of the lack of adequate data. We employ new teleseismic P and S wave traveltime data to develop tomographic images of the Yellowstone hot spot upper mantle. The teleseismic data were recorded with two temporary seismograph arrays deployed in a 500 km by 600 km area centered on Yellowstone. Additional data from nearby regional seismic networks were incorporated into the data set. The VP and VS models reveal a strong low-velocity anomaly from ∼50 to 200 km directly beneath the Yellowstone caldera and eastern Snake River Plain, as has been imaged in previous studies. Peak anomalies are −2.3% for VP and −5.5% for VS. A weaker, anomaly with a velocity perturbation of up to −1.0% VP and −2.5% VS continues to at least 400 km depth. This anomaly dips 30° from vertical, west-northwest to a location beneath the northern Rocky Mountains. We interpret the low-velocity body as a plume of upwelling hot, and possibly wet rock, from the mantle transition zone that promotes small-scale convection in the upper ∼200 km of the mantle and long-lived volcanism. A high-velocity anomaly, 1.2%VP and 1.9% VS, is located at ∼100 to 250 km depth southeast of Yellowstone and may represent a downwelling of colder, denser mantle material.

  15. Exploration and discovery in Yellowstone Lake: Results from high-resolution sonar imaging, seismic reflection profiling, and submersible studies

    USGS Publications Warehouse

    Morgan, L.A.; Shanks, Wayne C.; Lovalvo, D.A.; Johnson, S.Y.; Stephenson, W.J.; Pierce, K.L.; Harlan, S.S.; Finn, C.A.; Lee, G.; Webring, M.; Schulze, B.; Duhn, J.; Sweeney, R.; Balistrieri, L.

    2003-01-01

    Discoveries from multi-beam sonar mapping and seismic reflection surveys of the northern, central, and West Thumb basins of Yellowstone Lake provide new insight into the extent of post-collapse volcanism and active hydrothermal processes occurring in a large lake environment above a large magma chamber. Yellowstone Lake has an irregular bottom covered with dozens of features directly related to hydrothermal, tectonic, volcanic, and sedimentary processes. Detailed bathymetric, seismic reflection, and magnetic evidence reveals that rhyolitic lava flows underlie much of Yellowstone Lake and exert fundamental control on lake bathymetry and localization of hydrothermal activity. Many previously unknown features have been identified and include over 250 hydrothermal vents, several very large (>500 m diameter) hydrothermal explosion craters, many small hydrothermal vent craters (???1-200 m diameter), domed lacustrine sediments related to hydrothermal activity, elongate fissures cutting post-glacial sediments, siliceous hydrothermal spire structures, sublacustrine landslide deposits, submerged former shorelines, and a recently active graben. Sampling and observations with a submersible remotely operated vehicle confirm and extend our understanding of the identified features. Faults, fissures, hydrothermally inflated domal structures, hydrothermal explosion craters, and sublacustrine landslides constitute potentially significant geologic hazards. Toxic elements derived from hydrothermal processes also may significantly affect the Yellowstone ecosystem. Published by Elsevier Science B.V.

  16. Modeling survival: application of the Andersen-Gill model to Yellowstone grizzly bears

    USGS Publications Warehouse

    Johnson, Christopher J.; Boyce, Mark S.; Schwartz, Charles C.; Haroldson, Mark A.

    2004-01-01

     Wildlife ecologists often use the Kaplan-Meier procedure or Cox proportional hazards model to estimate survival rates, distributions, and magnitude of risk factors. The Andersen-Gill formulation (A-G) of the Cox proportional hazards model has seen limited application to mark-resight data but has a number of advantages, including the ability to accommodate left-censored data, time-varying covariates, multiple events, and discontinuous intervals of risks. We introduce the A-G model including structure of data, interpretation of results, and assessment of assumptions. We then apply the model to 22 years of radiotelemetry data for grizzly bears (Ursus arctos) of the Greater Yellowstone Grizzly Bear Recovery Zone in Montana, Idaho, and Wyoming, USA. We used Akaike's Information Criterion (AICc) and multi-model inference to assess a number of potentially useful predictive models relative to explanatory covariates for demography, human disturbance, and habitat. Using the most parsimonious models, we generated risk ratios, hypothetical survival curves, and a map of the spatial distribution of high-risk areas across the recovery zone. Our results were in agreement with past studies of mortality factors for Yellowstone grizzly bears. Holding other covariates constant, mortality was highest for bears that were subjected to repeated management actions and inhabited areas with high road densities outside Yellowstone National Park. Hazard models developed with covariates descriptive of foraging habitats were not the most parsimonious, but they suggested that high-elevation areas offered lower risks of mortality when compared to agricultural areas.

  17. The 2017 Maple Creek Seismic Swarm in Yellowstone National Park

    NASA Astrophysics Data System (ADS)

    Pang, G.; Hale, J. M.; Farrell, J.; Burlacu, R.; Koper, K. D.; Smith, R. B.

    2017-12-01

    The University of Utah Seismograph Stations (UUSS) performs near-real-time monitoring of seismicity in the region around Yellowstone National Park in partnership with the United States Geological Survey and the National Park Service. UUSS operates and maintains 29 seismic stations with network code WY (short-period, strong-motion, and broadband) and records data from five other seismic networks—IW, MB, PB, TA, and US—to enhance the location capabilities in the Yellowstone region. A seismic catalog is produced using a conventional STA/LTA detector and single-event location techniques (Hypoinverse). On June 12, 2017, a seismic swarm began in Yellowstone National Park about 5 km east of Hebgen Lake. The swarm is adjacent to the source region of the 1959 MW 7.3 Hebgen Lake earthquake, in an area corresponding to positive Coulumb stress change from that event. As of Aug. 1, 2017, the swarm consists of 1481 earthquakes with 1 earthquake above magnitude 4, 8 earthquakes in the magnitude 3 range, 115 earthquakes in the magnitude 2 range, 469 earthquakes in the magnitude 1 range, 856 earthquakes in the magnitude 0 range, 22 earthquakes with negative magnitudes, and 10 earthquakes with no magnitude. Earthquake depths are mostly between 3 and 10 km and earthquake depth increases toward the northwest. Moment tensors for the 2 largest events (3.6 MW and 4.4. MW) show strike-slip faulting with T axes oriented NE-SW, consistent with the regional stress field. We are currently using waveform cross-correlation methods to measure differential travel times that are being used with the GrowClust program to generate high-accuracy relative relocations. Those locations will be used to identify structures in the seismicity and make inferences about the tectonic and magmatic processes causing the swarm.

  18. A Riparian Approach to Dendrochronological Flow Reconstruction, Yellowstone River, Montana

    NASA Astrophysics Data System (ADS)

    Schook, D. M.; Rathburn, S. L.; Friedman, J. M.

    2015-12-01

    Tree ring-based flow reconstructions can reveal river discharge variability over durations far exceeding the gauged record, building perspective for both the measured record and future flows. We use plains cottonwood (Populus deltoides subsp. monilifera) tree rings collected from four rivers to reconstruct flow history of the Yellowstone River near its confluence with the Missouri River. Upland trees in dry regions are typically used in flow reconstruction because their annual growth is controlled by the same precipitation that drives downstream flow, but our study improves flow reconstruction by including floodplain trees that are directly affected by the river. Cores from over 1000 cottonwoods along the Yellowstone, Powder, Little Missouri, and Redwater Rivers were collected from within a 170 km radius to reconstruct flows using the Age Curve Standardization technique in a multiple regression analysis. The large sample from trees spanning many age classes allows us to use only the rings that were produced when each tree was less than 50 years old and growth was most strongly correlated to river discharge. Using trees from a range of rivers improves our ability to differentiate between growth resulting from local precipitation and river flow, and we show that cottonwood growth differs across these neighboring rivers having different watersheds. Using the program Seascorr, tree growth is found to better correlated to seasonal river discharge (R = 0.69) than to local precipitation (R = 0.45). Our flow reconstruction reveals that the most extreme multi-year or multi-decade drought periods of the last 250 years on either the Yellowstone (1817-1821) or Powder (1846-1865) Rivers are missed by the gauged discharge record. Across all sites, we document increased growth in the 20th century compared to the 19th, a finding unattainable with conventional methods but having important implications for flow management.

  19. Expanding the eukaryotic genetic code

    DOEpatents

    Chin, Jason W.; Cropp, T. Ashton; Anderson, J. Christopher; Schultz, Peter G.

    2013-01-22

    This invention provides compositions and methods for producing translational components that expand the number of genetically encoded amino acids in eukaryotic cells. The components include orthogonal tRNAs, orthogonal aminoacyl-tRNA synthetases, orthogonal pairs of tRNAs/synthetases and unnatural amino acids. Proteins and methods of producing proteins with unnatural amino acids in eukaryotic cells are also provided.

  20. Expanding the eukaryotic genetic code

    DOE Office of Scientific and Technical Information (OSTI.GOV)

    Chin, Jason W.; Cropp, T. Ashton; Anderson, J. Christopher

    This invention provides compositions and methods for producing translational components that expand the number of genetically encoded amino acids in eukaryotic cells. The components include orthogonal tRNAs, orthogonal aminoacyl-tRNA synthetases, orthogonal pairs of tRNAs/synthetases and unnatural amino acids. Proteins and methods of producing proteins with unnatural amino acids in eukaryotic cells are also provided.

  1. Expanding the eukaryotic genetic code

    DOEpatents

    Chin, Jason W [Cambridge, GB; Cropp, T Ashton [Bethesda, MD; Anderson, J Christopher [San Francisco, CA; Schultz, Peter G [La Jolla, CA

    2009-10-27

    This invention provides compositions and methods for producing translational components that expand the number of genetically encoded amino acids in eukaryotic cells. The components include orthogonal tRNAs, orthogonal aminoacyl-tRNA synthetases, orthogonal pairs of tRNAs/synthetases and unnatural amino acids. Proteins and methods of producing proteins with unnatural amino acids in eukaryotic cells are also provided.

  2. Expanding the eukaryotic genetic code

    DOEpatents

    Chin, Jason W; Cropp, T. Ashton; Anderson, J. Christopher; Schultz, Peter G

    2015-02-03

    This invention provides compositions and methods for producing translational components that expand the number of genetically encoded amino acids in eukaryotic cells. The components include orthogonal tRNAs, orthogonal aminoacyl-tRNA synthetases, orthogonal pairs of tRNAs/synthetases and unnatural amino acids. Proteins and methods of producing proteins with unnatural amino acids in eukaryotic cells are also provided.

  3. Expanding the eukaryotic genetic code

    DOEpatents

    Chin, Jason W [Cambridge, GB; Cropp, T Ashton [Bethesda, MD; Anderson, J Christopher [San Francisco, CA; Schultz, Peter G [La Jolla, CA

    2009-12-01

    This invention provides compositions and methods for producing translational components that expand the number of genetically encoded amino acids in eukaryotic cells. The components include orthogonal tRNAs, orthogonal aminoacyl-tRNA synthetases, orthogonal pairs of tRNAs/synthetases and unnatural amino acids. Proteins and methods of producing proteins with unnatural amino acids in eukaryotic cells are also provided.

  4. Expanding the eukaryotic genetic code

    DOEpatents

    Chin, Jason W [Cambridge, GB; Cropp, T Ashton [Bethesda, MD; Anderson, J Christopher [San Francisco, CA; Schultz, Peter G [La Jolla, CA

    2012-02-14

    This invention provides compositions and methods for producing translational components that expand the number of genetically encoded amino acids in eukaryotic cells. The components include orthogonal tRNAs, orthogonal aminoacyl-tRNA synthetases, orthogonal pairs of tRNAs/synthetases and unnatural amino acids. Proteins and methods of producing proteins with unnatural amino acids in eukaryotic cells are also provided.

  5. Expanding the eukaryotic genetic code

    DOEpatents

    Chin, Jason W [Cambridge, GB; Cropp, T Ashton [Bethesda, MD; Anderson, J Christopher [San Francisco, CA; Schultz, Peter G [La Jolla, CA

    2009-11-17

    This invention provides compositions and methods for producing translational components that expand the number of genetically encoded amino acids in eukaryotic cells. The components include orthogonal tRNAs, orthogonal aminoacyl-tRNA synthetases, orthogonal pairs of tRNAs/synthetases and unnatural amino acids. Proteins and methods of producing proteins with unnatural amino acids in eukaryotic cells are also provided.

  6. Expanding the eukaryotic genetic code

    DOEpatents

    Chin, Jason W.; Cropp, T. Ashton; Anderson, J. Christopher; Schultz, Peter G.

    2010-09-14

    This invention provides compositions and methods for producing translational components that expand the number of genetically encoded amino acids in eukaryotic cells. The components include orthogonal tRNAs, orthogonal aminoacyl-tRNA synthetases, orthogonal pairs of tRNAs/synthetases and unnatural amino acids. Proteins and methods of producing proteins with unnatural amino acids in eukaryotic cells are also provided.

  7. Expanding the eukaryotic genetic code

    DOEpatents

    Chin, Jason W [Cambridge, GB; Cropp, T Ashton [Bethesda, MD; Anderson, J Christopher [San Francisco, CA; Schultz, Peter G [La Jolla, CA

    2012-05-08

    This invention provides compositions and methods for producing translational components that expand the number of genetically encoded amino acids in eukaryotic cells. The components include orthogonal tRNAs, orthogonal aminoacyl-tRNA synthetases, orthogonal pairs of tRNAs/synthetases and unnatural amino acids. Proteins and methods of producing proteins with unnatural amino acids in eukaryotic cells are also provided.

  8. Siliceous Shrubs in Yellowstone's Hot Springs: Implications for Exobiological Investigations

    NASA Technical Reports Server (NTRS)

    Guidry, S. A.; Chafetz, H. S.

    2003-01-01

    Potential relict hot springs have been identified on Mars and, using the Earth as an analog, Martian hot springs are postulated to be an optimal locality for recognizing preserved evidence of extraterrestrial life. Distinctive organic and inorganic biomarkers are necessary to recognize preserved evidence of life in terrestrial and extraterrestrial hot spring accumulations. Hot springs in Yellowstone National Park, Wyoming, U.S.A., contain a wealth of information about primitive microbial life and associated biosignatures that may be useful for future exobiological investigations. Numerous siliceous hot springs in Yellowstone contain abundant, centimeter-scale, spinose precipitates of opaline silica (opal-A). Although areally extensive in siliceous hot spring discharge channel facies, these spinose forms have largely escaped attention. These precipitates referred to as shrubs, consist of porous aggregates of spinose opaline silica that superficially resemble miniature woody plants, i.e., the term shrubs. Shrubs in carbonate precipitating systems have received considerable attention, and represent naturally occurring biotically induced precipitates. As such, shrubs have great potential as hot spring environmental indicators and, more importantly, proxies for pre-existing microbial life.

  9. Distribution of grizzly bears in the Greater Yellowstone Ecosystem, 2004

    USGS Publications Warehouse

    Schwartz, C.C.; Haroldson, M.A.; Gunther, K.; Moody, D.

    2006-01-01

    The US Fish and Wildlife Service (USFWS) proposed delisting the Yellowstone grizzly bear (Ursus arctos horribilis) in November 2005. Part of that process required knowledge of the most current distribution of the species. Here, we update an earlier estimate of occupied range (1990–2000) with data through 2004. We used kernel estimators to develop distribution maps of occupied habitats based on initial sightings of unduplicated females (n = 481) with cubs of the year, locations of radiomarked bears (n = 170), and spatially unique locations of conflicts, confrontations, and mortalities (n = 1,075). Although each data set was constrained by potential sampling bias, together they provided insight into areas in the Greater Yellowstone Ecosystem (GYE) currently occupied by grizzly bears. The current distribution of 37,258 km2 (1990–2004) extends beyond the distribution map generated with data from 1990–2000 (34,416 km2 ). Range expansion is particularly evident in parts of the Caribou–Targhee National Forest in Idaho and north of Spanish Peaks on the Gallatin National Forest in Montana.

  10. 75 FR 30295 - Modification of Class E Airspace; West Yellowstone, MT

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-06-01

    ... Positioning System (GPS) Standard Instrument Approach Procedure (SIAP) at West Yellowstone Airport. This will... also includes minor adjustments in the legal description of the airspace. DATES: Effective date, 0901... executing new RNAV (GPS) SIAP's at the airport. This rule also makes minor changes to the legal description...

  11. Creating Conditions for Policy Change in National Parks: Contrasting Cases in Yellowstone and Yosemite

    NASA Astrophysics Data System (ADS)

    Yochim, Michael J.; Lowry, William R.

    2016-05-01

    Public agencies face significant political obstacles when they try to change long-standing policies. This paper examines efforts by the U.S. National Park Service to change long-term policies in Yellowstone and Yosemite national parks. We argue that, to be successful, the agency and pro-change allies must expand the sphere of conflict to engage the support of the broader American public through positive framing, supportive science, compelling economic arguments, consistent goals, and the commitment of other institutional actors. We show that the agency is capable of creating these conditions, as in the reintroduction of wolves to Yellowstone, but we argue that this is not always the outcome, as in reducing automobile congestion in Yosemite Valley.

  12. Creating Conditions for Policy Change in National Parks: Contrasting Cases in Yellowstone and Yosemite.

    PubMed

    Yochim, Michael J; Lowry, William R

    2016-05-01

    Public agencies face significant political obstacles when they try to change long-standing policies. This paper examines efforts by the U.S. National Park Service to change long-term policies in Yellowstone and Yosemite national parks. We argue that, to be successful, the agency and pro-change allies must expand the sphere of conflict to engage the support of the broader American public through positive framing, supportive science, compelling economic arguments, consistent goals, and the commitment of other institutional actors. We show that the agency is capable of creating these conditions, as in the reintroduction of wolves to Yellowstone, but we argue that this is not always the outcome, as in reducing automobile congestion in Yosemite Valley.

  13. Paleobiological perspectives on early eukaryotic evolution.

    PubMed

    Knoll, Andrew H

    2014-01-01

    Eukaryotic organisms radiated in Proterozoic oceans with oxygenated surface waters, but, commonly, anoxia at depth. Exceptionally preserved fossils of red algae favor crown group emergence more than 1200 million years ago, but older (up to 1600-1800 million years) microfossils could record stem group eukaryotes. Major eukaryotic diversification ~800 million years ago is documented by the increase in the taxonomic richness of complex, organic-walled microfossils, including simple coenocytic and multicellular forms, as well as widespread tests comparable to those of extant testate amoebae and simple foraminiferans and diverse scales comparable to organic and siliceous scales formed today by protists in several clades. Mid-Neoproterozoic establishment or expansion of eukaryophagy provides a possible mechanism for accelerating eukaryotic diversification long after the origin of the domain. Protists continued to diversify along with animals in the more pervasively oxygenated oceans of the Phanerozoic Eon.

  14. A computer program for estimating instream travel times and concentrations of a potential contaminant in the Yellowstone River, Montana

    USGS Publications Warehouse

    McCarthy, Peter M.

    2006-01-01

    The Yellowstone River is very important in a variety of ways to the residents of southeastern Montana; however, it is especially vulnerable to spilled contaminants. In 2004, the U.S. Geological Survey, in cooperation with Montana Department of Environmental Quality, initiated a study to develop a computer program to rapidly estimate instream travel times and concentrations of a potential contaminant in the Yellowstone River using regression equations developed in 1999 by the U.S. Geological Survey. The purpose of this report is to describe these equations and their limitations, describe the development of a computer program to apply the equations to the Yellowstone River, and provide detailed instructions on how to use the program. This program is available online at [http://pubs.water.usgs.gov/sir2006-5057/includes/ytot.xls]. The regression equations provide estimates of instream travel times and concentrations in rivers where little or no contaminant-transport data are available. Equations were developed and presented for the most probable flow velocity and the maximum probable flow velocity. These velocity estimates can then be used to calculate instream travel times and concentrations of a potential contaminant. The computer program was developed so estimation equations for instream travel times and concentrations can be solved quickly for sites along the Yellowstone River between Corwin Springs and Sidney, Montana. The basic types of data needed to run the program are spill data, streamflow data, and data for locations of interest along the Yellowstone River. Data output from the program includes spill location, river mileage at specified locations, instantaneous discharge, mean-annual discharge, drainage area, and channel slope. Travel times and concentrations are provided for estimates of the most probable velocity of the peak concentration and the maximum probable velocity of the peak concentration. Verification of estimates of instream travel times and

  15. Space Radar Image of Yellowstone Park, Wyoming

    NASA Image and Video Library

    1999-05-01

    These two radar images show the majestic Yellowstone National Park, Wyoming, the oldest national park in the United States and home to the world's most spectacular geysers and hot springs. The region supports large populations of grizzly bears, elk and bison. In 1988, the park was burned by one of the most widespread fires to occur in the northern Rocky Mountains in the last 50 years. Surveys indicated that 793,880 acres of land burned. Of that, 41 percent was burned forest, with tree canopies totally consumed by the fire; 35 percent was a combination of unburned, scorched and blackened trees; 13 percent was surface burn under an unburned canopy; 6 percent was non-forest burn; and 5 percent was undifferentiated burn. Six years later, the burned areas are still clearly visible in these false-color radar images obtained by the Spaceborne Imaging Radar-C/X-band Synthetic Aperture Radar on board the space shuttle Endeavour. The image at the left was obtained using the L-band radar channel, horizontally received and vertically transmitted, on the shuttle's 39th orbit on October 2, 1994. The area shown is 45 kilometers by 71 kilometers (28 miles by 44 miles) in size and centered at 44.6 degrees north latitude, 110.7 degrees west longitude. North is toward the top of the image (to the right). Most trees in this area are lodge pole pines at different stages of fire succession. Yellowstone Lake appears as a large dark feature at the bottom of the scene. At right is a map of the forest crown, showing its biomass, or amount of vegetation, which includes foliage and branches. The map was created by inverting SIR-C data and using in situ estimates of crown biomass gathered by the Yellowstone National Biological Survey. The map is displayed on a color scale from blue (rivers and lakes with no biomass) to brown (non-forest areas with crown biomass of less than 4 tons per hectare) to light brown (areas of canopy burn with biomass of between 4 and 12 tons per hectare). Yellow

  16. 76 FR 77131 - Special Regulations; Areas of the National Park System, Yellowstone National Park

    Federal Register 2010, 2011, 2012, 2013, 2014

    2011-12-12

    ... FURTHER INFORMATION CONTACT: Steve Iobst, Deputy Superintendent, Yellowstone National Park, (307) 344-2002... material way the economy, productivity, competition, jobs, the environment, public health or safety, or...

  17. Transfer of DNA from Bacteria to Eukaryotes

    PubMed Central

    2016-01-01

    ABSTRACT Historically, the members of the Agrobacterium genus have been considered the only bacterial species naturally able to transfer and integrate DNA into the genomes of their eukaryotic hosts. Yet, increasing evidence suggests that this ability to genetically transform eukaryotic host cells might be more widespread in the bacterial world. Indeed, analyses of accumulating genomic data reveal cases of horizontal gene transfer from bacteria to eukaryotes and suggest that it represents a significant force in adaptive evolution of eukaryotic species. Specifically, recent reports indicate that bacteria other than Agrobacterium, such as Bartonella henselae (a zoonotic pathogen), Rhizobium etli (a plant-symbiotic bacterium related to Agrobacterium), or even Escherichia coli, have the ability to genetically transform their host cells under laboratory conditions. This DNA transfer relies on type IV secretion systems (T4SSs), the molecular machines that transport macromolecules during conjugative plasmid transfer and also during transport of proteins and/or DNA to the eukaryotic recipient cells. In this review article, we explore the extent of possible transfer of genetic information from bacteria to eukaryotic cells as well as the evolutionary implications and potential applications of this transfer. PMID:27406565

  18. Long-term limnological data from the larger lakes of Yellowstone National Park, Wyoming, USA

    USGS Publications Warehouse

    Theriot, E.C.; Fritz, S.C.; Gresswell, Robert E.

    1997-01-01

    Long-term limnological data from the four largest lakes in Yellowstone National Park (Yellowstone, Lewis, Shoshone, Heart) are used to characterize their limnology and patterns of temporal and spatial variability. Heart Lake has distinctively high concentrations of dissolved materials, apparently reflecting high thermal inputs. Shoshone and Lewis lakes have the highest total SiO2 concentrations (averaging over 23.5 mg L-1), apparently as a result of the rhyolitic drainage basins. Within Yellowstone Lake spatial variability is low and ephemeral for most measured variables, except that the Southeast Arm has lower average Na concentrations. Seasonal variation is evident for Secchi transparency, pH, and total-SiO2 and probably reflects seasonal changes in phytoplankton biomass and productivity. Total dissolved solids (TDS) and total-SiO2 generally show a gradual decline from the mid-1970s through mid-1980s, followed by a sharp increase. Ratios of Kjeldahl-N to total-PO4 (KN:TP) suggest that the lakes, especially Shoshone, are often nitrogen limited. Kjeldahl-N is positively correlated with winter precipitation, but TP and total-SiO2 are counterintuitively negatively correlated with precipitation. We speculate that increased winter precipitation, rather than watershed fires, increases N-loading which, in turn, leads to increased demand for TP and total SiO2.

  19. The phenology of space: Spatial aspects of bison density dependence in Yellowstone National Park

    USGS Publications Warehouse

    Taper, M.L.; Meagher, M.; Jerde, C.L.

    2000-01-01

    The Yellowstone bison represent the only bison population in the United States that survived in the wild the near-extermination of the late 1800's. This paper capitalizes on a unique opportunity provided by the record of the bison population of Yellowstone National Park (YNP). This population has been intensely monitored for almost four decades. The analysis of long-term spatio-temporal data from 1970-1997 supports the following conclusions. 1) Even though the Yellowstone bison herd exhibits an extended period of what appears to be linear growth, this pattern can be explained with classical density dependent dynamics if one realizes that perhaps the primary response of the herd to increased density is range expansion. 2) Several spatial aspects of social behavior in the YNP bison may be behavioral adaptations by the bison to environmental changes. These behavioral strategies may buffer, temporarily at least, bison population dynamics from the immediate repercussions of possible environmental stress and habitat deterioration. 3) Bison ecological carrying capacity for YNP is on the order of 2800 to 3200 animals. 4) There do appear to be indications of changes in the bison dynamics that are associated with increasing use of sections of the interior road system in winter. 5) The possibility of habitat degradation is indicated.

  20. Regeneration and survival of whitebark pine after the 1988 Yellowstone fires

    Treesearch

    Diana F. Tomback; Anna W. Schoettle; Mario J. Perez; Kristen M. Grompone; Sabine Mellmann-Brown

    2011-01-01

    Successional whitebark pine (Pinus albicaulis) communities are dependent on fire and other disturbances for renewal (Arno 2001). Where whitebark pine regenerates results from cache site selection by Clark's nutcrackers (Nucifraga columbiana) in relation to the environmental tolerances of seeds and seedlings (Tomback 2001). After the 1988 Yellowstone fires, we...

  1. Energetics and genetics across the prokaryote-eukaryote divide

    PubMed Central

    2011-01-01

    Background All complex life on Earth is eukaryotic. All eukaryotic cells share a common ancestor that arose just once in four billion years of evolution. Prokaryotes show no tendency to evolve greater morphological complexity, despite their metabolic virtuosity. Here I argue that the eukaryotic cell originated in a unique prokaryotic endosymbiosis, a singular event that transformed the selection pressures acting on both host and endosymbiont. Results The reductive evolution and specialisation of endosymbionts to mitochondria resulted in an extreme genomic asymmetry, in which the residual mitochondrial genomes enabled the expansion of bioenergetic membranes over several orders of magnitude, overcoming the energetic constraints on prokaryotic genome size, and permitting the host cell genome to expand (in principle) over 200,000-fold. This energetic transformation was permissive, not prescriptive; I suggest that the actual increase in early eukaryotic genome size was driven by a heavy early bombardment of genes and introns from the endosymbiont to the host cell, producing a high mutation rate. Unlike prokaryotes, with lower mutation rates and heavy selection pressure to lose genes, early eukaryotes without genome-size limitations could mask mutations by cell fusion and genome duplication, as in allopolyploidy, giving rise to a proto-sexual cell cycle. The side effect was that a large number of shared eukaryotic basal traits accumulated in the same population, a sexual eukaryotic common ancestor, radically different to any known prokaryote. Conclusions The combination of massive bioenergetic expansion, release from genome-size constraints, and high mutation rate favoured a protosexual cell cycle and the accumulation of eukaryotic traits. These factors explain the unique origin of eukaryotes, the absence of true evolutionary intermediates, and the evolution of sex in eukaryotes but not prokaryotes. Reviewers This article was reviewed by: Eugene Koonin, William Martin

  2. Magnetotelluric Investigations of the Yellowstone Caldera: Understanding the Emplacement of Crustal Magma Bodies

    NASA Astrophysics Data System (ADS)

    Gurrola, R. M.; Neal, B. A.; Bennington, N. L.; Cronin, R.; Fry, B.; Hart, L.; Imamura, N.; Kelbert, A.; Bowles-martinez, E.; Miller, D. J.; Scholz, K. J.; Schultz, A.

    2017-12-01

    Wideband magnetotellurics (MT) presents an ideal method for imaging conductive shallow magma bodies associated with contemporary Yellowstone-Snake River Plain (YSRP) magmatism. Particularly, how do these magma bodies accumulate in the mid to upper crust underlying the Yellowstone Caldera, and furthermore, what role do hydrothermal fluids play in their ascent? During the summer 2017 field season, two field teams from Oregon State University and the University of Wisconsin-Madison installed forty-four wideband MT stations within and around the caldera, and using data slated for joint 3-D inversion with existing seismic data, two 2-D vertical conductivity sections of the crust and upper mantle were constructed. These models, in turn, provide preliminary insight into the emplacement of crustal magma bodies and hydrothermal processes in the YSRP region.

  3. Ghosts of Yellowstone: Multi-Decadal Histories of Wildlife Populations Captured by Bones on a Modern Landscape

    PubMed Central

    Miller, Joshua H.

    2011-01-01

    Natural accumulations of skeletal material (death assemblages) have the potential to provide historical data on species diversity and population structure for regions lacking decades of wildlife monitoring, thereby contributing valuable baseline data for conservation and management strategies. Previous studies of the ecological and temporal resolutions of death assemblages from terrestrial large-mammal communities, however, have largely focused on broad patterns of community composition in tropical settings. Here, I expand the environmental sampling of large-mammal death assemblages into a temperate biome and explore more demanding assessments of ecological fidelity by testing their capacity to record past population fluctuations of individual species in the well-studied ungulate community of Yellowstone National Park (Yellowstone). Despite dramatic ecological changes following the 1988 wildfires and 1995 wolf re-introduction, the Yellowstone death assemblage is highly faithful to the living community in species richness and community structure. These results agree with studies of tropical death assemblages and establish the broad capability of vertebrate remains to provide high-quality ecological data from disparate ecosystems and biomes. Importantly, the Yellowstone death assemblage also correctly identifies species that changed significantly in abundance over the last 20 to ∼80 years and the directions of those shifts (including local invasions and extinctions). The relative frequency of fresh versus weathered bones for individual species is also consistent with documented trends in living population sizes. Radiocarbon dating verifies the historical source of bones from Equus caballus (horse): a functionally extinct species. Bone surveys are a broadly valuable tool for obtaining population trends and baseline shifts over decadal-to-centennial timescales. PMID:21464921

  4. Paleobiological Perspectives on Early Eukaryotic Evolution

    PubMed Central

    Knoll, Andrew H.

    2014-01-01

    Eukaryotic organisms radiated in Proterozoic oceans with oxygenated surface waters, but, commonly, anoxia at depth. Exceptionally preserved fossils of red algae favor crown group emergence more than 1200 million years ago, but older (up to 1600–1800 million years) microfossils could record stem group eukaryotes. Major eukaryotic diversification ∼800 million years ago is documented by the increase in the taxonomic richness of complex, organic-walled microfossils, including simple coenocytic and multicellular forms, as well as widespread tests comparable to those of extant testate amoebae and simple foraminiferans and diverse scales comparable to organic and siliceous scales formed today by protists in several clades. Mid-Neoproterozoic establishment or expansion of eukaryophagy provides a possible mechanism for accelerating eukaryotic diversification long after the origin of the domain. Protists continued to diversify along with animals in the more pervasively oxygenated oceans of the Phanerozoic Eon. PMID:24384569

  5. Storage of Explosive versus Effusive Rhyolite Magma at the Yellowstone Volcanic Center

    NASA Astrophysics Data System (ADS)

    Gardner, J. E.

    2007-12-01

    The Yellowstone volcanic center has erupted more than 900 km3 of rhyolitic magma in the last 600,000 years (1). Most of that magma extruded as large lava flows, with only a few known explosive eruptions. Why have explosive eruptions been so rare in the recent history of the Yellowstone volcanic system? To explore that question, we focus on the Tuff of Bluff Point (TBP), about 50 km3 of magma that explosively erupted 173 ka, forming the West Thumb caldera (1). Like most other recent eruptions of Yellowstone, TBP is high silica rhyolite, with phenocrysts of quartz, sanidine, and minor ferro-pyroxenes and Fe-Ti oxides. Fe-Ti oxide and pyroxene compositions indicate that the magma had equilibrated at an oxygen fugacity equal to the QFM buffer. Rehomogenized glass inclusions (n=7) in quartz contain 2.2-3.1 wt.% water and between 400-650 ppm CO2. Those volatile contents indicate storage pressures of 90-160 MPa. Ubiquitous pyrrhotite shows that the magma was sulfur saturated, and most likely volatile saturated. The co-existing fluid would be only 42-47% water. Cathodoluminescence (CL) images of quartz phenocrysts reveal mainly concentric growth zones, with occasional dissolution boundaries present. Ti contents in quartz generally decrease from core to rim, indicating cooling of the magma, although the relative temperature changes recorded are only 10-15°, with only minor changes across dissolution boundaries. To put our observations in perspective of the recent Yellowstone magma system, we have begun examining some of the recent rhyolitic lavas, including the Pitchstone Plateau (PP), a single homogeneous lava flow of 70 km3 that erupted 79 ka (1). CL images also reveal mainly concentric quartz growth, with few dissolution boundaries obvious. Ti contents in quartz also generally decrease from core to rim, but are uniformly lower than in those in TBP, suggesting that PP magma was colder than TBP magma. Glass inclusions (n=20) in PP are generally water poor and rarely

  6. 75 FR 27579 - Bison Brucellosis Remote Vaccination, Draft Environmental Impact Statement, Yellowstone National...

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-05-17

    ... INFORMATION CONTACT: Rick Wallen, Bison Ecology and Management Office, Yellowstone National Park, P.O. Box 168... may submit your comments by any one of several methods. You may mail comments to the Bison Ecology and...

  7. Origins of Eukaryotic Sexual Reproduction

    PubMed Central

    2014-01-01

    Sexual reproduction is a nearly universal feature of eukaryotic organisms. Given its ubiquity and shared core features, sex is thought to have arisen once in the last common ancestor to all eukaryotes. Using the perspectives of molecular genetics and cell biology, we consider documented and hypothetical scenarios for the instantiation and evolution of meiosis, fertilization, sex determination, uniparental inheritance of organelle genomes, and speciation. PMID:24591519

  8. Fueling a Crisis: Public Argument and the 1988 Yellowstone Fire Debate.

    ERIC Educational Resources Information Center

    Hardy-Short, Dayle; Short, C. Brant

    Debate surrounding the 1988 Yellowstone National Park fires provides material for a case study into the relationship between a crisis and public argument. Studies like this reflect the importance of a recent trend in higher education, namely, the analysis of environmental issues from different academic perspectives. In this case, analysis of…

  9. Origin and Evolution of the Yellowstone Hotspot from Seismic-GPS Imaging and Geodynamic Modeling

    NASA Astrophysics Data System (ADS)

    Smith, R. B.; Jordan, M.; Puskas, C. M.; Farrell, J.; Waite, G. P.

    2006-12-01

    The Yellowstone hotspot resulted from interaction of a mantle plume with the overriding North America plate. This feature and related processes have influenced a large part of the western U.S., producing the 16 Ma Yellowstone-Snake River Plain-Newberry silicic-basalt volcanic field (YSRPN). We integrate results from a multi-institution experiment that deployed 80 seismic stations and 160 campaign and 21 permanent GPS stations for 1999-2003. Crust and mantle velocity models were derived from inversion of teleseismic and local earthquake data. Kinematic and dynamic models were derived from inversion of GPS velocities constrained by stresses associated the topography and the +15 m geoid anomaly. Tomography revealed a P- and S-wave low-velocity body at depths of 8-16 km beneath the caldera that is interpreted as partial melt of 8-15% that feeds the youthful Yellowstone volcanic field. Volume changes in the magma chamber are responsible for GPS-measured episodes of uplift and subsidence of the caldera at decadal scales with average rates of ~20 mm/yr but much higher short-term rates of up to 80 mm/yr. An upper-mantle low-velocity body was imaged by inverting teleseismic data constrained by the geoid structure, crustal structure, and the upper mantle discontinuities. This low P and S velocity body extends from 80 km to ~250 km directly beneath Yellowstone and then continues to 650 km with unexpected tilt to the west at ~60°. The tilt is consistent with the ascent of the buoyant magma entrained in eastward return-flow of the upper mantle. We estimate this body has an excess temperature from 85K to 120K, depending on the water content and with up to 1.5% melt. Using the inclined plume-geometry and plate motion history, we extrapolate the Yellowstone mantle source southwestward ~800 km as a plume-head in oceanic lithosphere centered beneath the Columbia Plateau basalt field at 16 Ma. Magma ascent was truncated there by the passage of thicker continental lithosphere over

  10. Geochemical evidence for hydroclimatic variability over the last 2460 years from Crevice Lake in Yellowstone National Park, USA

    USGS Publications Warehouse

    Stevens, L.R.; Dean, W.E.

    2008-01-01

    A 2460-year-long hydroclimatic record for Crevice Lake, Yellowstone National Park, Montana was constructed from the ??18O values of endogenic carbonates. The ??18O record is compared to the Palmer Hydrologic Drought Index (PHDI) and Pacific Decadal Oscillation (PDO) indices, as well as inferred discharge of the Yellowstone River. During the last century, high ??18O values coincide with drought conditions and the warm phase of the PDO index. Low ??18O values coincide with wet years and a negative PDO index. Comparison of tree-ring inferred discharge of the Yellowstone River with the ??18O record over the last 300 years indicates that periods of high discharge (i.e., wet winters with significant snow pack) correspond with low ??18O values. Extrapolating this relationship we infer wet winters and high river discharge for the periods of 1090-1030, 970-870, 670-620, and 500-430 cal years BP. The wet intervals at 670 and 500 cal BP are synchronous with similar events in Banff, Canada and Walker Lake, Nevada. The wet intervals at 970 and 670 cal BP overlap with wet intervals at Walker Lake and major drought events identified in the western Great Basin. These results suggest that the northern border of Yellowstone National Park straddles the boundary between Northern Rocky Mountains and Great Basin climate regimes. ?? 2007 Elsevier Ltd and INQUA.

  11. Exploration and discovery in Yellowstone Lake: results from high-resolution sonar imaging, seismic reflection profiling, and submersible studies

    NASA Astrophysics Data System (ADS)

    Morgan, L. A.; Shanks, W. C.; Lovalvo, D. A.; Johnson, S. Y.; Stephenson, W. J.; Pierce, K. L.; Harlan, S. S.; Finn, C. A.; Lee, G.; Webring, M.; Schulze, B.; Dühn, J.; Sweeney, R.; Balistrieri, L.

    2003-04-01

    'No portion of the American continent is perhaps so rich in wonders as the Yellow Stone' (F.V. Hayden, September 2, 1874) Discoveries from multi-beam sonar mapping and seismic reflection surveys of the northern, central, and West Thumb basins of Yellowstone Lake provide new insight into the extent of post-collapse volcanism and active hydrothermal processes occurring in a large lake environment above a large magma chamber. Yellowstone Lake has an irregular bottom covered with dozens of features directly related to hydrothermal, tectonic, volcanic, and sedimentary processes. Detailed bathymetric, seismic reflection, and magnetic evidence reveals that rhyolitic lava flows underlie much of Yellowstone Lake and exert fundamental control on lake bathymetry and localization of hydrothermal activity. Many previously unknown features have been identified and include over 250 hydrothermal vents, several very large (>500 m diameter) hydrothermal explosion craters, many small hydrothermal vent craters (˜1-200 m diameter), domed lacustrine sediments related to hydrothermal activity, elongate fissures cutting post-glacial sediments, siliceous hydrothermal spire structures, sublacustrine landslide deposits, submerged former shorelines, and a recently active graben. Sampling and observations with a submersible remotely operated vehicle confirm and extend our understanding of the identified features. Faults, fissures, hydrothermally inflated domal structures, hydrothermal explosion craters, and sublacustrine landslides constitute potentially significant geologic hazards. Toxic elements derived from hydrothermal processes also may significantly affect the Yellowstone ecosystem.

  12. A fluid-driven earthquake swarm on the margin of the Yellowstone caldera

    USGS Publications Warehouse

    Shelly, David R.; Hill, David P.; Massin, Frederick; Farrell, Jamie; Smith, Robert B.; Taira, Taka'aki

    2013-01-01

    Over the past several decades, the Yellowstone caldera has experienced frequent earthquake swarms and repeated cycles of uplift and subsidence, reflecting dynamic volcanic and tectonic processes. Here, we examine the detailed spatial-temporal evolution of the 2010 Madison Plateau swarm, which occurred near the northwest boundary of the Yellowstone caldera. To fully explore the evolution of the swarm, we integrated procedures for seismic waveform-based earthquake detection with precise double-difference relative relocation. Using cross-correlation of continuous seismic data and waveform templates constructed from cataloged events, we detected and precisely located 8710 earthquakes during the three-week swarm, nearly four times the number of events included in the standard catalog. This high-resolution analysis reveals distinct migration of earthquake activity over the course of the swarm. The swarm initiated abruptly on January 17, 2010 at about 10 km depth and expanded dramatically outward (both shallower and deeper) over time, primarily along a NNW-striking, ~55º ENE-dipping structure. To explain these characteristics, we hypothesize that the swarm was triggered by the rupture of a zone of confined high-pressure aqueous fluids into a pre-existing crustal fault system, prompting release of accumulated stress. The high-pressure fluid injection may have been accommodated by hybrid shear and dilatational failure, as is commonly observed in exhumed hydrothermally affected fault zones. This process has likely occurred repeatedly in Yellowstone as aqueous fluids exsolved from magma migrate into the brittle crust, and it may be a key element in the observed cycles of caldera uplift and subsidence.

  13. Methylmercury enters an aquatic food web through acidophilic microbial mats in Yellowstone National Park, Wyoming

    USGS Publications Warehouse

    Boyd, E.S.; King, S.; Tomberlin, J.K.; Nordstrom, D. Kirk; Krabbenhoft, D.P.; Barkay, T.; Geesey, G.G.

    2009-01-01

    Summary Microbial mats are a visible and abundant life form inhabiting the extreme environments in Yellowstone National Park (YNP), WY, USA. Little is known of their role in food webs that exist in the Park's geothermal habitats. Eukaryotic green algae associated with a phototrophic green/purple Zygogonium microbial mat community that inhabits low-temperature regions of acidic (pH ??? 3.0) thermal springs were found to serve as a food source for stratiomyid (Diptera: Stratiomyidae) larvae. Mercury in spring source water was taken up and concentrated by the mat biomass. Monomethylmercury compounds (MeHg +), while undetectable or near the detection limit (0.025 ng l -1) in the source water of the springs, was present at concentrations of 4-7 ng g-1 dry weight of mat biomass. Detection of MeHg + in tracheal tissue of larvae grazing the mat suggests that MeHg+ enters this geothermal food web through the phototrophic microbial mat community. The concentration of MeHg+ was two to five times higher in larval tissue than mat biomass indicating MeHg+ biomagnification occurred between primary producer and primary consumer trophic levels. The Zygogonium mat community and stratiomyid larvae may also play a role in the transfer of MeHg+ to species in the food web whose range extends beyond a particular geothermal feature of YNP. ?? 2008 The Authors. Journal compilation ?? 2008 Society for Applied Microbiology and Blackwell Publishing Ltd.

  14. Fire, red squirrels, whitebark pine, and Yellowstone grizzly bears

    USGS Publications Warehouse

    Podruzny, Shannon; Reinhart, Daniel P.; Mattson, David J.

    1999-01-01

    Whitebark pine (Pinus albicaulis) habitats are important to Yellowstone grizzly bears (Ursus arctos) as refugia and sources of food. Ecological relationships between whitebark pine, red squirrels (Tamiasciurus hudsonicus), and grizzly bear use of pine seeds on Mt. Washburn in Yellowstone National Park, Wyoming, were examined during 1984-86. Following large-scale fires in 1988, we repeated the study in 1995-97 to examine the effects of fire on availability of whitebark pine seed in red squirrel middens and on bear use of middens. Half of the total length of the original line transects burned. We found no red squirrel middens in burned areas. Post-fire linear-abundance (no./km) of active squirrel middens that were pooled from burned and unburned areas decreased 27% compared to pre-fire abundance, but increased in unburned portions of some habitat types. Mean size of active middens decreased 54% post-fire. Use of pine seeds by bears (linear abundance of excavated middens) in pooled burned and unburned habitats decreased by 64%, likely due to the combined effects of reduced midden availability and smaller midden size. We discourage any further large-scale losses of seed producing trees from management-prescribed fires or timber harvesting until the effects of fire on ecological relationships in the whitebark pine zone are better understood.

  15. 75 FR 4842 - Winter Use Plan, Environmental Impact Statement, Yellowstone National Park

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-01-29

    ... establish a management framework that allows the public to experience Yellowstone's unique winter resources... the environmental effects of winter use on air quality and visibility, wildlife, natural soundscapes... U.S. Forest Service. A scoping brochure has been prepared that details the issues identified to date...

  16. Ancient diversification of eukaryotic MCM DNA replication proteins

    PubMed Central

    Liu, Yuan; Richards, Thomas A; Aves, Stephen J

    2009-01-01

    Background Yeast and animal cells require six mini-chromosome maintenance proteins (Mcm2-7) for pre-replication complex formation, DNA replication initiation and DNA synthesis. These six individual MCM proteins form distinct heterogeneous subunits within a hexamer which is believed to form the replicative helicase and which associates with the essential but non-homologous Mcm10 protein during DNA replication. In contrast Archaea generally only possess one MCM homologue which forms a homohexameric MCM helicase. In some eukaryotes Mcm8 and Mcm9 paralogues also appear to be involved in DNA replication although their exact roles are unclear. Results We used comparative genomics and phylogenetics to reconstruct the diversification of the eukaryotic Mcm2-9 gene family, demonstrating that Mcm2-9 were formed by seven gene duplication events before the last common ancestor of the eukaryotes. Mcm2-7 protein paralogues were present in all eukaryote genomes studied suggesting that no gene loss or functional replacements have been tolerated during the evolutionary diversification of eukaryotes. Mcm8 and 9 are widely distributed in eukaryotes and group together on the MCM phylogenetic tree to the exclusion of all other MCM paralogues suggesting co-ancestry. Mcm8 and Mcm9 are absent in some taxa, including Trichomonas and Giardia, and appear to have been secondarily lost in some fungi and some animals. The presence and absence of Mcm8 and 9 is concordant in all taxa sampled with the exception of Drosophila species. Mcm10 is present in most eukaryotes sampled but shows no concordant pattern of presence or absence with Mcm8 or 9. Conclusion A multifaceted and heterogeneous Mcm2-7 hexamer evolved during the early evolution of the eukaryote cell in parallel with numerous other acquisitions in cell complexity and prior to the diversification of extant eukaryotes. The conservation of all six paralogues throughout the eukaryotes suggests that each Mcm2-7 hexamer component has an

  17. Seeking a scientific approach to backcountry management in Yellowstone National Park

    Treesearch

    S. Thomas Olliff; Sue Consolo Murphy

    2000-01-01

    Three criteria are used to assess how Yellowstone’s wilderness managers incorporate science into management: preciousness, vulnerability and responsiveness to management. Four observations are proposed. First, where scientists lead, managers will follow. Scientists that leave the best trail will be followed most closely. Second, managers need to refocus efforts on...

  18. Sediment characteristics of the Yellowstone River in the vicinity of a proposed bypass chute near Glendive, Montana, 2011

    USGS Publications Warehouse

    Hanson, Brent R.

    2012-01-01

    In 2011, sediment data were collected by the U.S. Geological Survey in cooperation with the U.S. Army Corps of Engineers on the Yellowstone River at the location of a proposed bypass chute. The sediment data were collected to provide an understanding of the sediment dynamics of the given reach of the Yellowstone River. Suspended-sediment concentrations collected at the three sites generally decreased with decreasing streamflow. In general, the highest suspendedsediment concentrations were found near the channel bed and towards the center of the channel with lower suspendedsediment concentrations near the channel banks and water surface. Suspended sediment was the primary component of the total sediment load for all three sampling locations on the Yellowstone River and contributed at least 98 percent of the total sediment load at each of the three sites. The amount of bedload measured at the three sites was a smaller load in comparison with the suspended-sediment load.

  19. How natural a kind is "eukaryote?".

    PubMed

    Doolittle, W Ford

    2014-06-02

    Systematics balances uneasily between realism and nominalism, uncommitted as to whether biological taxa are discoveries or inventions. If the former, they might be taken as natural kinds. I briefly review some philosophers' concepts of natural kinds and then argue that several of these apply well enough to "eukaryote." Although there are some sticky issues around genomic chimerism and when eukaryotes first appeared, if we allow for degrees in the naturalness of kinds, existing eukaryotes rank highly, higher than prokaryotes. Most biologists feel this intuitively: All I attempt to do here is provide some conceptual justification. Copyright © 2014 Cold Spring Harbor Laboratory Press; all rights reserved.

  20. Sulfolobus islandicus meta-populations in Yellowstone National Park hot springs

    USGS Publications Warehouse

    Campbell, Kate M.; Kouris, Angela; England, Whitney; Anderson, Rika E.; McCleskey, R. Blaine; Nordstrom, D. Kirk; Whitaker, Rachel J.

    2017-01-01

    Abiotic and biotic forces shape the structure and evolution of microbial populations. We investigated forces that shape the spatial and temporal population structure of Sulfolobus islandicus by comparing geochemical and molecular analysis from seven hot springs in five regions sampled over 3 years in Yellowstone National Park. Through deep amplicon sequencing, we uncovered 148 unique alleles at two loci whose relative frequency provides clear evidence for independent populations in different hot springs. Although geography controls regional geochemical composition and population differentiation, temporal changes in population were not explained by corresponding variation in geochemistry. The data suggest that the influence of extinction, bottleneck events and/or selective sweeps within a spring and low migration between springs shape these populations. We suggest that hydrologic events such as storm events and surface snowmelt runoff destabilize smaller hot spring environments with smaller populations and result in high variation in the S. islandicus population over time. Therefore, physical abiotic features such as hot spring size and position in the landscape are important factors shaping the stability and diversity of the S. islandicus meta-population within Yellowstone National Park.

  1. Comparative genomics and evolution of eukaryotic phospholipidbiosynthesis

    DOE Office of Scientific and Technical Information (OSTI.GOV)

    Lykidis, Athanasios

    2006-12-01

    Phospholipid biosynthetic enzymes produce diverse molecular structures and are often present in multiple forms encoded by different genes. This work utilizes comparative genomics and phylogenetics for exploring the distribution, structure and evolution of phospholipid biosynthetic genes and pathways in 26 eukaryotic genomes. Although the basic structure of the pathways was formed early in eukaryotic evolution, the emerging picture indicates that individual enzyme families followed unique evolutionary courses. For example, choline and ethanolamine kinases and cytidylyltransferases emerged in ancestral eukaryotes, whereas, multiple forms of the corresponding phosphatidyltransferases evolved mainly in a lineage specific manner. Furthermore, several unicellular eukaryotes maintain bacterial-type enzymesmore » and reactions for the synthesis of phosphatidylglycerol and cardiolipin. Also, base-exchange phosphatidylserine synthases are widespread and ancestral enzymes. The multiplicity of phospholipid biosynthetic enzymes has been largely generated by gene expansion in a lineage specific manner. Thus, these observations suggest that phospholipid biosynthesis has been an actively evolving system. Finally, comparative genomic analysis indicates the existence of novel phosphatidyltransferases and provides a candidate for the uncharacterized eukaryotic phosphatidylglycerol phosphate phosphatase.« less

  2. Mountain big sagebrush age distribution and relationships on the northern Yellowstone Winter Range

    Treesearch

    Carl L. Wambolt; Trista L. Hoffman

    2001-01-01

    This study was conducted within the Gardiner Basin, an especially critical wintering area for native ungulates utilizing the Northern Yellowstone Winter Range. Mountain big sagebrush plants on 33 sites were classified as large (≥22 cm canopy cover), small (

  3. Geomicrobiology of sublacustrine thermal vents in Yellowstone Lake: geochemical controls on microbial community structure and function

    PubMed Central

    Inskeep, William P.; Jay, Zackary J.; Macur, Richard E.; Clingenpeel, Scott; Tenney, Aaron; Lovalvo, David; Beam, Jacob P.; Kozubal, Mark A.; Shanks, W. C.; Morgan, Lisa A.; Kan, Jinjun; Gorby, Yuri; Yooseph, Shibu; Nealson, Kenneth

    2015-01-01

    Yellowstone Lake (Yellowstone National Park, WY, USA) is a large high-altitude (2200 m), fresh-water lake, which straddles an extensive caldera and is the center of significant geothermal activity. The primary goal of this interdisciplinary study was to evaluate the microbial populations inhabiting thermal vent communities in Yellowstone Lake using 16S rRNA gene and random metagenome sequencing, and to determine how geochemical attributes of vent waters influence the distribution of specific microorganisms and their metabolic potential. Thermal vent waters and associated microbial biomass were sampled during two field seasons (2007–2008) using a remotely operated vehicle (ROV). Sublacustrine thermal vent waters (circa 50–90°C) contained elevated concentrations of numerous constituents associated with geothermal activity including dissolved hydrogen, sulfide, methane and carbon dioxide. Microorganisms associated with sulfur-rich filamentous “streamer” communities of Inflated Plain and West Thumb (pH range 5–6) were dominated by bacteria from the Aquificales, but also contained thermophilic archaea from the Crenarchaeota and Euryarchaeota. Novel groups of methanogens and members of the Korarchaeota were observed in vents from West Thumb and Elliot's Crater (pH 5–6). Conversely, metagenome sequence from Mary Bay vent sediments did not yield large assemblies, and contained diverse thermophilic and nonthermophilic bacterial relatives. Analysis of functional genes associated with the major vent populations indicated a direct linkage to high concentrations of carbon dioxide, reduced sulfur (sulfide and/or elemental S), hydrogen and methane in the deep thermal ecosystems. Our observations show that sublacustrine thermal vents in Yellowstone Lake support novel thermophilic communities, which contain microorganisms with functional attributes not found to date in terrestrial geothermal systems of YNP. PMID:26579074

  4. Amphibian mortality events and ranavirus outbreaks in the Greater Yellowstone Ecosystem

    USGS Publications Warehouse

    Patla, Debra A.; St-Hilaire, Sophia; Rayburn, Andrew P.; Hossack, Blake R.; Peterson, Charles R.

    2016-01-01

    Mortality events in wild amphibians go largely undocumented, and where events are detected, the numbers of dead amphibians observed are probably a small fraction of actual mortality (Green and Sherman 2001; Skerratt et al. 2007). Incidental observations from field surveys can, despite limitations, provide valuable information on the presence, host species, and spatial distribution of diseases. Here we summarize amphibian mortality events and diagnoses recorded from 2000 to 2014 in three management areas: Yellowstone National Park; Grand Teton National Park (including John D. Rockefeller, Jr. Memorial Parkway); and the National Elk Refuge, which together span a large portion of protected areas within the Greater Yellowstone Ecosystem (GYE; Noss et al. 2002). Our combined amphibian monitoring projects (e.g., Gould et al. 2012) surveyed an average of 240 wetlands per year over the 15 years. Field crews recorded amphibian mortalities during visual encounter and dip-netting surveys and collected moribund and dead specimens for diagnostic examinations. Amphibian and fish research projects during these years contributed additional mortality observations, specimens, and diagnoses.

  5. Two-dimensional habitat modeling in the Yellowstone/Upper Missouri River system

    USGS Publications Warehouse

    Waddle, T. J.; Bovee, K.D.; Bowen, Z.H.

    1997-01-01

    This study is being conducted to provide the aquatic biology component of a decision support system being developed by the U.S. Bureau of Reclamation. In an attempt to capture the habitat needs of Great Plains fish communities we are looking beyond previous habitat modeling methods. Traditional habitat modeling approaches have relied on one-dimensional hydraulic models and lumped compositional habitat metrics to describe aquatic habitat. A broader range of habitat descriptors is available when both composition and configuration of habitats is considered. Habitat metrics that consider both composition and configuration can be adapted from terrestrial biology. These metrics are most conveniently accessed with spatially explicit descriptors of the physical variables driving habitat composition. Two-dimensional hydrodynamic models have advanced to the point that they may provide the spatially explicit description of physical parameters needed to address this problem. This paper reports progress to date on applying two-dimensional hydraulic and habitat models on the Yellowstone and Missouri Rivers and uses examples from the Yellowstone River to illustrate the configurational metrics as a new tool for assessing riverine habitats.

  6. Estimating numbers of females with cubs-of-the-year in the Yellowstone grizzly bear population

    USGS Publications Warehouse

    Keating, K.A.; Schwartz, C.C.; Haroldson, M.A.; Moody, D.

    2001-01-01

    For grizzly bears (Ursus arctos horribilis) in the Greater Yellowstone Ecosystem (GYE), minimum population size and allowable numbers of human-caused mortalities have been calculated as a function of the number of unique females with cubs-of-the-year (FCUB) seen during a 3- year period. This approach underestimates the total number of FCUB, thereby biasing estimates of population size and sustainable mortality. Also, it does not permit calculation of valid confidence bounds. Many statistical methods can resolve or mitigate these problems, but there is no universal best method. Instead, relative performances of different methods can vary with population size, sample size, and degree of heterogeneity among sighting probabilities for individual animals. We compared 7 nonparametric estimators, using Monte Carlo techniques to assess performances over the range of sampling conditions deemed plausible for the Yellowstone population. Our goal was to estimate the number of FCUB present in the population each year. Our evaluation differed from previous comparisons of such estimators by including sample coverage methods and by treating individual sightings, rather than sample periods, as the sample unit. Consequently, our conclusions also differ from earlier studies. Recommendations regarding estimators and necessary sample sizes are presented, together with estimates of annual numbers of FCUB in the Yellowstone population with bootstrap confidence bounds.

  7. Growth, morphology, and developmental instability of rainbow trout, Yellowstone cutthroat trout, and four hybrid generations

    USGS Publications Warehouse

    Ostberg, C.O.; Duda, J.J.; Graham, J.H.; Zhang, S.; Haywood, K. P.; Miller, B.; Lerud, T.L.

    2011-01-01

    Hybridization of cutthroat trout Oncorhynchus clarkii with nonindigenous rainbow trout O. mykiss contributes to the decline of cutthroat trout subspecies throughout their native range. Introgression by rainbow trout can swamp the gene pools of cutthroat trout populations, especially if there is little selection against hybrids. We used rainbow trout, Yellowstone cutthroat trout O. clarkii bouvieri, and rainbow trout × Yellowstone cutthroat trout F1 hybrids as parents to construct seven different line crosses: F1 hybrids (both reciprocal crosses), F2 hybrids, first-generation backcrosses (both rainbow trout and Yellowstone cutthroat trout), and both parental taxa. We compared growth, morphology, and developmental instability among these seven crosses reared at two different temperatures. Growth was related to the proportion of rainbow trout genome present within the crosses. Meristic traits were influenced by maternal, additive, dominant, overdominant, and (probably) epistatic genetic effects. Developmental stability, however, was not disturbed in F1 hybrids, F2 hybrids, or backcrosses. Backcrosses were morphologically similar to their recurrent parent. The lack of developmental instability in hybrids suggests that there are few genetic incompatibilities preventing introgression. Our findings suggest that hybrids are not equal: that is, growth, development, character traits, and morphology differ depending on the genomic contribution from each parental species as well as the hybrid generation.

  8. Morphological and ecological complexity in early eukaryotic ecosystems.

    PubMed

    Javaux, E J; Knoll, A H; Walter, M R

    2001-07-05

    Molecular phylogeny and biogeochemistry indicate that eukaryotes differentiated early in Earth history. Sequence comparisons of small-subunit ribosomal RNA genes suggest a deep evolutionary divergence of Eukarya and Archaea; C27-C29 steranes (derived from sterols synthesized by eukaryotes) and strong depletion of 13C (a biogeochemical signature of methanogenic Archaea) in 2,700 Myr old kerogens independently place a minimum age on this split. Steranes, large spheroidal microfossils, and rare macrofossils of possible eukaryotic origin occur in Palaeoproterozoic rocks. Until now, however, evidence for morphological and taxonomic diversification within the domain has generally been restricted to very late Mesoproterozoic and Neoproterozoic successions. Here we show that the cytoskeletal and ecological prerequisites for eukaryotic diversification were already established in eukaryotic microorganisms fossilized nearly 1,500 Myr ago in shales of the early Mesoproterozoic Roper Group in northern Australia.

  9. Final evaluation report for the greater Yellowstone regional traveler and weather information system (GYRTWIS)

    DOT National Transportation Integrated Search

    2004-12-30

    This final report describes the national evaluation of the Greater Yellowstone Regional Traveler and Weather Information System (GYRTWIS). This evaluation complements the ongoing GYRTWIS evaluation being conducted by WTI/MSU by investigating three ar...

  10. Winter visitor use planning in Yellowstone and Grand Teton National Parks

    Treesearch

    John A. Sacklin; Kristin L. Legg; M. Sarah Creachbaum; Clifford L. Hawkes; George Helfrich

    2000-01-01

    Winter use in Yellowstone and Grand Teton National Parks increased dramatically in the 1980s and early 1990s. That increase and the emphasis on snowmobiles as the primary mode of transportation brought into focus a host of winter-related issues, including air pollution, unwanted sound, wildlife impacts and the adequacy of agency budgets, staff and infrastructure to...

  11. Drug resistance in eukaryotic microorganisms

    PubMed Central

    Fairlamb, Alan H.; Gow, Neil A. R.; Matthews, Keith R.; Waters, Andrew P.

    2016-01-01

    Eukaryotic microbial pathogens are major contributors to illness and death globally. Although much of their impact can be controlled by drug therapy as with prokaryotic microorganisms, the emergence of drug resistance has threatened these treatment efforts. Here, we discuss the challenges posed by eukaryotic microbial pathogens and how these are similar to, or differ from, the challenges of prokaryotic antibiotic resistance. The therapies used for several major eukaryotic microorganisms are then detailed, and the mechanisms that they have evolved to overcome these therapies are described. The rapid emergence of resistance and the restricted pipeline of new drug therapies pose considerable risks to global health and are particularly acute in the developing world. Nonetheless, we detail how the integration of new technology, biological understanding, epidemiology and evolutionary analysis can help sustain existing therapies, anticipate the emergence of resistance or optimize the deployment of new therapies. PMID:27572976

  12. Changing numbers of spawning cutthroat trout in tributary streams of Yellowstone Lake and estimates of grizzly bears visiting streams from DNA

    USGS Publications Warehouse

    Haroldson, M.A.; Gunther, K.A.; Reinhart, Daniel P.; Podruzny, S.R.; Cegelski, C.; Waits, L.; Wyman, T.C.; Smith, J.

    2005-01-01

    Spawning Yellowstone cutthroat trout (Oncorhynchus clarki) provide a source of highly digestible energy for grizzly bears (Ursus arctos) that visit tributary streams to Yellowstone Lake during the spring and early summer. During 1985–87, research documented grizzly bears fishing on 61% of the 124 tributary streams to the lake. Using track measurements, it was estimated that a minimum of 44 grizzly bears fished those streams annually. During 1994, non-native lake trout (Salvelinus namaycush) were discovered in Yellowstone Lake. Lake trout are efficient predators and have the potential to reduce the native cutthroat population and negatively impact terrestrial predators that use cutthroat trout as a food resource. In 1997, we began sampling a subset of streams (n = 25) from areas of Yellowstone Lake surveyed during the previous study to determine if changes in spawner numbers or bear use had occurred. Comparisons of peak numbers and duration suggested a considerable decline between study periods in streams in the West Thumb area of the lake. The apparent decline may be due to predation by lake trout. Indices of bear use also declined on West Thumb area streams. We used DNA from hair collected near spawning streams to estimate the minimum number of bears visiting the vicinity of spawning streams. Seventy-four individual bears were identified from 429 hair samples. The annual number of individuals detected ranged from 15 in 1997 to 33 in 2000. Seventy percent of genotypes identified were represented by more than 1 sample, but only 31% of bears were documented more than 1 year of the study. Sixty-two (84%) bears were only documented in 1 segment of the lake, whereas 12 (16%) were found in 2–3 lake segments. Twenty-seven bears were identified from hair collected at multiple streams. One bear was identified on 6 streams in 2 segments of the lake and during 3 years of the study. We used encounter histories derived from DNA and the Jolly-Seber procedure in Program MARK

  13. Draft Genome Sequence of Bacillus altitudinis YNP4-TSU, Isolated from Yellowstone National Park

    PubMed Central

    OHair, Joshua A.; Li, Hui; Thapa, Santosh; Scholz, Matthew

    2017-01-01

    ABSTRACT Undisturbed hot springs inside Yellowstone National Park remain a dynamic biome for novel cellulolytic thermophiles. We report here the draft genome sequence of one of these isolates, Bacillus altitudinis YNP4-TSU. PMID:28705979

  14. The Eukaryotic Replisome Goes Under the Microscope

    DOE PAGES

    O'Donnell, Mike; Li, Huilin

    2016-03-21

    The machinery at the eukaryotic replication fork has seen many new structural advances using EM and crystallography. Recent structures of eukaryotic replisome components include the Mcm2-7 complex, the CMG helicase, DNA polymerases, a Ctf4 trimer hub and the first look at a core replisome of 20 different proteins containing the helicase, primase, leading polymerase and a lagging strand polymerase. The eukaryotic core replisome shows an unanticipated architecture, with one polymerase sitting above the helicase and the other below. Additionally, structures of Mcm2 bound to an H3/H4 tetramer suggest a direct role of the replisome in handling nucleosomes, which are importantmore » to DNA organization and gene regulation. This review provides a summary of some of the many recent advances in the structure of the eukaryotic replisome.« less

  15. Response of Yellowstone grizzly bears to changes in food resources: A synthesis. Final report to the Interagency Grizzly Bear Committee and Yellowstone Ecosystem Subcommittee

    USGS Publications Warehouse

    ,; van Manen, Frank T.; Costello, Cecily M.; Haroldson, Mark A.; Bjornlie, Daniel D.; Ebinger, Michael R.; Gunther, Kerry A.; Mahalovich, Mary Frances; Thompson, Daniel J.; Higgs, Megan D.; Irvine, Kathryn M.; Legg, Kristin; Tyers, Daniel B.; Landenburger, Lisa; Cain, Steven L.; Frey, Kevin L.; Aber, Bryan C.; Schwartz, Charles C.

    2013-01-01

    The Yellowstone grizzly bear (Ursus arctos) was listed as a threatened species in 1975 (Federal Register 40 FR:31734-31736). Since listing, recovery efforts have focused on increasing population size, improving habitat security, managing bear mortalities, and reducing bear-human conflicts. The Interagency Grizzly Bear Committee (IGBC; partnership of federal and state agencies responsible for grizzly bear recovery in the lower 48 states) and its Yellowstone Ecosystem Subcommitte (YES; federal, state, county, and tribal partners charged with recovery of grizzly bears in the Greater Yelowston Ecosystem [GYE]) tasked the Interagency Grizzly Bear Study Team to provide information and further research relevant to three concerns arising from the 9th Circuit Court of Appeals November 2011 decision: 1) the ability of grizzly bears as omnivores to find alternative foods to whitebark pine seeds; 2) literature to support their conclusions; and 3) the non-intuitive biological reality that impacts can occur to individuals without causing the overall population to decline. Specifically, the IGBC and YES requested a comprehensive synthesis of the current state of knowledge regarding whitebark pinbe decline and individual and population-level responses of grizzly bears to changing food resources in the GYE. This research was particularly relevant to grizzly bear conservation given changes in the population trajectory observed during the last decade.

  16. Atypical mitochondrial inheritance patterns in eukaryotes.

    PubMed

    Breton, Sophie; Stewart, Donald T

    2015-10-01

    Mitochondrial DNA (mtDNA) is predominantly maternally inherited in eukaryotes. Diverse molecular mechanisms underlying the phenomenon of strict maternal inheritance (SMI) of mtDNA have been described, but the evolutionary forces responsible for its predominance in eukaryotes remain to be elucidated. Exceptions to SMI have been reported in diverse eukaryotic taxa, leading to the prediction that several distinct molecular mechanisms controlling mtDNA transmission are present among the eukaryotes. We propose that these mechanisms will be better understood by studying the deviations from the predominating pattern of SMI. This minireview summarizes studies on eukaryote species with unusual or rare mitochondrial inheritance patterns, i.e., other than the predominant SMI pattern, such as maternal inheritance of stable heteroplasmy, paternal leakage of mtDNA, biparental and strictly paternal inheritance, and doubly uniparental inheritance of mtDNA. The potential genes and mechanisms involved in controlling mitochondrial inheritance in these organisms are discussed. The linkage between mitochondrial inheritance and sex determination is also discussed, given that the atypical systems of mtDNA inheritance examined in this minireview are frequently found in organisms with uncommon sexual systems such as gynodioecy, monoecy, or andromonoecy. The potential of deviations from SMI for facilitating a better understanding of a number of fundamental questions in biology, such as the evolution of mtDNA inheritance, the coevolution of nuclear and mitochondrial genomes, and, perhaps, the role of mitochondria in sex determination, is considerable.

  17. Biochemistry and Evolution of Anaerobic Energy Metabolism in Eukaryotes

    PubMed Central

    Müller, Miklós; Mentel, Marek; van Hellemond, Jaap J.; Henze, Katrin; Woehle, Christian; Gould, Sven B.; Yu, Re-Young; van der Giezen, Mark

    2012-01-01

    Summary: Major insights into the phylogenetic distribution, biochemistry, and evolutionary significance of organelles involved in ATP synthesis (energy metabolism) in eukaryotes that thrive in anaerobic environments for all or part of their life cycles have accrued in recent years. All known eukaryotic groups possess an organelle of mitochondrial origin, mapping the origin of mitochondria to the eukaryotic common ancestor, and genome sequence data are rapidly accumulating for eukaryotes that possess anaerobic mitochondria, hydrogenosomes, or mitosomes. Here we review the available biochemical data on the enzymes and pathways that eukaryotes use in anaerobic energy metabolism and summarize the metabolic end products that they generate in their anaerobic habitats, focusing on the biochemical roles that their mitochondria play in anaerobic ATP synthesis. We present metabolic maps of compartmentalized energy metabolism for 16 well-studied species. There are currently no enzymes of core anaerobic energy metabolism that are specific to any of the six eukaryotic supergroup lineages; genes present in one supergroup are also found in at least one other supergroup. The gene distribution across lineages thus reflects the presence of anaerobic energy metabolism in the eukaryote common ancestor and differential loss during the specialization of some lineages to oxic niches, just as oxphos capabilities have been differentially lost in specialization to anoxic niches and the parasitic life-style. Some facultative anaerobes have retained both aerobic and anaerobic pathways. Diversified eukaryotic lineages have retained the same enzymes of anaerobic ATP synthesis, in line with geochemical data indicating low environmental oxygen levels while eukaryotes arose and diversified. PMID:22688819

  18. Travel Times, Streamflow Velocities, and Dispersion Rates in the Yellowstone River, Montana

    USGS Publications Warehouse

    McCarthy, Peter M.

    2009-01-01

    The Yellowstone River is a vital natural resource to the residents of southeastern Montana and is a primary source of water for irrigation and recreation and the primary source of municipal water for several cities. The Yellowstone River valley is the primary east-west transportation corridor through southern Montana. This complex of infrastructure makes the Yellowstone River especially vulnerable to accidental spills from various sources such as tanker cars and trucks. In 2008, the U.S. Geological Survey (USGS), in cooperation with the Montana Department of Environmental Quality, initiated a dye-tracer study to determine instream travel times, streamflow velocities, and dispersion rates for the Yellowstone River from Lockwood to Glendive, Montana. The purpose of this report is to describe the results of this study and summarize data collected at each of the measurement sites between Lockwood and Glendive. This report also compares the results of this study to estimated travel times from a transport model developed by the USGS for a previous study. For this study, Rhodamine WT dye was injected at four locations in late September and early October 2008 during reasonably steady streamflow conditions. Streamflows ranged from 3,490 to 3,770 cubic feet per second upstream from the confluence of the Bighorn River and ranged from 6,520 to 7,570 cubic feet per second downstream from the confluence of the Bighorn River. Mean velocities were calculated for each subreach between measurement sites for the leading edge, peak concentration, centroid, and trailing edge at 10 percent of the peak concentration. Calculated velocities for the centroid of the dye plume for subreaches that were completely laterally mixed ranged from 1.83 to 3.18 ft/s within the study reach from Lockwood Bridge to Glendive Bridge. The mean of the completely mixed centroid velocity for the entire study reach, excluding the subreach between Forsyth Bridge and Cartersville Dam, was 2.80 ft/s. Longitudinal

  19. Quaternary Landscape Evolution and the Surface Expression of Plume-Lithosphere Interactions in the Greater Yellowstone Area.

    NASA Astrophysics Data System (ADS)

    Guerrero, E.; Meigs, A.; Kirby, E.

    2016-12-01

    Numerous investigations demonstrate that mantle convective processes such as upwelling affect the surface topography of the overriding plate and propagates through the plate accompanying its lateral motion. This deformation signal is known as transient topography and is thought to occur in the North American plate as it passes over the Yellowstone hotspot. This work explores the sensitivity of the surface of Western North America by testing the hypothesis that advection of a transient topographic wave through the North American plate is driving post-Pliocene landscape evolution of the greater Yellowstone region as the plate passes over the mantle plume. Analysis of digital elevation data reveals an asymmetric topographic swell that has an amplitude of 400-1200 m and a wavelength of 600 km which was disentangled from overlapping signals preserved in the topography. A maximum uplift rate of 0.17 mm yr-1 leads the apex of the transient topography swell by nearly 100 km. This means that presently, the western edge of the Bighorn Basin is experiencing a surface uplift rate between 0.166 and 0.302 mm yr-1 which indicates 400-800m of surface uplift in the western edge of the basin since 3 Ma and a tilt of 0.3° and 0.5° away from Yellowstone. We reinterpret the drainage evolution and erosional story of the Bighorn Basin preserved by sequences of fluvial terraces in the Bighorn Basin based on this new deformation model. We integrate this new deformation model with mapping, dating, and paleoflow data into the post-Pliocene erosional story in the basin. The change from a northward drainage to an eastward drainage through stream capture, the lateral migration of the Bighorn river away from Yellowstone, and differential incision in the basin coincides with transient topography-forced deformation.

  20. Eukaryotes first: how could that be?

    PubMed

    Mariscal, Carlos; Doolittle, W Ford

    2015-09-26

    In the half century since the formulation of the prokaryote : eukaryote dichotomy, many authors have proposed that the former evolved from something resembling the latter, in defiance of common (and possibly common sense) views. In such 'eukaryotes first' (EF) scenarios, the last universal common ancestor is imagined to have possessed significantly many of the complex characteristics of contemporary eukaryotes, as relics of an earlier 'progenotic' period or RNA world. Bacteria and Archaea thus must have lost these complex features secondarily, through 'streamlining'. If the canonical three-domain tree in which Archaea and Eukarya are sisters is accepted, EF entails that Bacteria and Archaea are convergently prokaryotic. We ask what this means and how it might be tested. © 2015 The Author(s).

  1. Performance of Yellowstone and Snake River Cutthroat Trout Fry Fed Seven Different Diets.

    USDA-ARS?s Scientific Manuscript database

    Five commercial diets and two formulated feeds were fed to initial-feeding Yellowstone cutthroat trout Oncorhynchus clarkii bouvieri fry and Snake River cutthroat trout O. clarkii spp. (currently being petitioned for classification as O. clarkii behnkei) fry for 18 weeks to evaluate fish performance...

  2. 78 FR 12353 - Winter Use Plan, Supplemental Environmental Impact Statement, Yellowstone National Park

    Federal Register 2010, 2011, 2012, 2013, 2014

    2013-02-22

    ... DEPARTMENT OF THE INTERIOR National Park Service [NPS-IMR-YELL-12081; PPWONRADE2, PMP00EI05.YP0000] Winter Use Plan, Supplemental Environmental Impact Statement, Yellowstone National Park AGENCY: National Park Service, Interior. ACTION: Notice of Availability. SUMMARY: Pursuant to the National Environmental...

  3. The Genome of Naegleria gruberi Illuminates Early Eukaryotic Versatility

    DOE Office of Scientific and Technical Information (OSTI.GOV)

    Fritz-Laylin, Lillian K.; Prochnik, Simon E.; Ginger, Michael L.

    2010-03-01

    Genome sequences of diverse free-living protists are essential for understanding eukaryotic evolution and molecular and cell biology. The free-living amoeboflagellate Naegleria gruberi belongs to a varied and ubiquitous protist clade (Heterolobosea) that diverged from other eukaryotic lineages over a billion years ago. Analysis of the 15,727 protein-coding genes encoded by Naegleria's 41 Mb nuclear genome indicates a capacity for both aerobic respiration and anaerobic metabolism with concomitant hydrogen production, with fundamental implications for the evolution of organelle metabolism. The Naegleria genome facilitates substantially broader phylogenomic comparisons of free-living eukaryotes than previously possible, allowing us to identify thousands of genes likelymore » present in the pan-eukaryotic ancestor, with 40% likely eukaryotic inventions. Moreover, we construct a comprehensive catalog of amoeboid-motility genes. The Naegleria genome, analyzed in the context of other protists, reveals a remarkably complex ancestral eukaryote with a rich repertoire of cytoskeletal, sexual, signaling, and metabolic modules.« less

  4. Classification of reaches in the Missouri and lower Yellowstone Rivers based on flow characteristics

    USGS Publications Warehouse

    Pegg, Mark A.; Pierce, Clay L.

    2002-01-01

    Several aspects of flow have been shown to be important determinants of biological community structure and function in streams, yet direct application of this approach to large rivers has been limited. Using a multivariate approach, we grouped flow gauges into hydrologically similar units in the Missouri and lower Yellowstone Rivers and developed a model based on flow variability parameters that could be used to test hypotheses about the role of flow in determining aquatic community structure. This model could also be used for future comparisons as the hydrological regime changes. A suite of hydrological parameters for the recent, post-impoundment period (1 October 1966–30 September 1996) for each of 15 gauges along the Missouri and lower Yellowstone Rivers were initially used. Preliminary graphical exploration identified five variables for use in further multivariate analyses. Six hydrologically distinct units composed of gauges exhibiting similar flow characteristics were then identified using cluster analysis. Discriminant analyses identified the three most influential variables as flow per unit drainage area, coefficient of variation of mean annual flow, and flow constancy. One surprising result was the relative similarity of flow regimes between the two uppermost and three lowermost gauges, despite large differences in magnitude of flow and separation by roughly 3000 km. Our results synthesize, simplify and interpret the complex changes in flow occurring along the Missouri and lower Yellowstone Rivers, and provide an objective grouping for future tests of how these changes may affect biological communities. 

  5. The origin of the eukaryotic cell

    NASA Technical Reports Server (NTRS)

    Hartman, H.

    1984-01-01

    The endosymbiotic hypothesis for the origin of the eukaryotic cell has been applied to the origin of the mitochondria and chloroplasts. However as has been pointed out by Mereschowsky in 1905, it should also be applied to the nucleus as well. If the nucleus, mitochondria and chloroplasts are endosymbionts, then it is likely that the organism that did the engulfing was not a DNA-based organism. In fact, it is useful to postulate that this organism was a primitive RNA-based organism. This hypothesis would explain the preponderance of RNA viruses found in eukaryotic cells. The centriole and basal body do not have a double membrane or DNA. Like all MTOCs (microtubule organising centres), they have a structural or morphic RNA implicated in their formation. This would argue for their origin in the early RNA-based organism rather than in an endosymbiotic event involving bacteria. Finally, the eukaryotic cell uses RNA in ways quite unlike bacteria, thus pointing to a greater emphasis of RNA in both control and structure in the cell. The origin of the eukaryotic cell may tell us why it rather than its prokaryotic relative evolved into the metazoans who are reading this paper.

  6. Microbial Eukaryotes: a Missing Link in Gut Microbiome Studies.

    PubMed

    Laforest-Lapointe, Isabelle; Arrieta, Marie-Claire

    2018-01-01

    Human-associated microbial communities include prokaryotic and eukaryotic organisms across high-level clades of the tree of life. While advances in high-throughput sequencing technology allow for the study of diverse lineages, the vast majority of studies are limited to bacteria, and very little is known on how eukaryote microbes fit in the overall microbial ecology of the human gut. As recent studies consider eukaryotes in their surveys, it is becoming increasingly clear that eukaryotes play important ecological roles in the microbiome as well as in host health. In this perspective, we discuss new evidence on eukaryotes as fundamental species of the human gut and emphasize that future microbiome studies should characterize the multitrophic interactions between microeukaryotes, other microorganisms, and the host.

  7. Microbial Eukaryotes: a Missing Link in Gut Microbiome Studies

    PubMed Central

    2018-01-01

    ABSTRACT Human-associated microbial communities include prokaryotic and eukaryotic organisms across high-level clades of the tree of life. While advances in high-throughput sequencing technology allow for the study of diverse lineages, the vast majority of studies are limited to bacteria, and very little is known on how eukaryote microbes fit in the overall microbial ecology of the human gut. As recent studies consider eukaryotes in their surveys, it is becoming increasingly clear that eukaryotes play important ecological roles in the microbiome as well as in host health. In this perspective, we discuss new evidence on eukaryotes as fundamental species of the human gut and emphasize that future microbiome studies should characterize the multitrophic interactions between microeukaryotes, other microorganisms, and the host. PMID:29556538

  8. Monitoring Greater Yellowstone Ecosystem wetlands: Can long-term monitoring help us understand their future?

    USGS Publications Warehouse

    Ray, Andrew M.; Sepulveda, Adam; Hossack, Blake R.; Patla, Debra; Thoma, David; Al-Chokhachy, Robert K.; Litt, Andrea R.

    2015-01-01

    In the Greater Yellowstone Ecosystem (GYE), changes in the drying cycles of wetlands have been documented. Wetlands are areas where the water table is at or near the land surface and standing shallow water is present for much or all of the growing season. We discuss how monitoring data can be used to document variation in annual flooding and drying patterns of wetlands monitored across Yellowstone and Grand Teton national parks, investigate how these patterns are related to a changing climate, and explore how drying of wetlands may impact amphibians. The documented declines of some amphibian species are of growing concern to scientists and land managers alike, in part because disappearances have occurred in some of the most protected places. These disappearances are a recognized component of what is being described as Earth’s sixth mass extinction.

  9. Protecting the Geyser Basins of Yellowstone National Park: Toward a New National Policy for a Vulnerable Environmental Resource

    NASA Astrophysics Data System (ADS)

    Barrick, Kenneth A.

    2010-01-01

    Geyser basins provide high value recreation, scientific, economic and national heritage benefits. Geysers are globally rare, in part, because development activities have quenched about 260 of the natural endowment. Today, more than half of the world’s remaining geysers are located in Yellowstone National Park, northwest Wyoming, USA. However, the hydrothermal reservoirs that supply Yellowstone’s geysers extend well beyond the Park borders, and onto two “Known Geothermal Resource Areas”—Island Park to the west and Corwin Springs on the north. Geysers are sensitive geologic features that are easily quenched by nearby geothermal wells. Therefore, the potential for geothermal energy development adjacent to Yellowstone poses a threat to the sustainability of about 500 geysers and 10,000 hydrothermal features. The purpose here is to propose that Yellowstone be protected by a “Geyser Protection Area” (GPA) extending in a 120-km radius from Old Faithful Geyser. The GPA concept would prohibit geothermal and large-scale groundwater wells, and thereby protect the water and heat supply of the hydrothermal reservoirs that support Yellowstone’s geyser basins and important hot springs. Proactive federal leadership, including buyouts of private groundwater development rights, can assist in navigating the GPA through the greater Yellowstone area’s “wicked” public policy environment. Moreover, the potential impacts on geyser basins from intrusive research sampling techniques are considered in order to facilitate the updating of national park research regulations to a precautionary standard. The GPA model can provide the basis for protecting the world’s few remaining geyser basins.

  10. Use of naturally occurring mercury to determine the importance of cutthroat trout to Yellowstone grizzly bears

    USGS Publications Warehouse

    Felicetti, L.A.; Schwartz, C.C.; Rye, R.O.; Gunther, K.A.; Crock, J.G.; Haroldson, M.A.; Waits, L.; Robbins, C.T.

    2004-01-01

    Spawning cutthroat trout (Oncorhynchus clarki (Richardson, 1836)) are a potentially important food resource for grizzly bears (Ursus arctos horribilis Ord, 1815) in the Greater Yellowstone Ecosystem. We developed a method to estimate the amount of cutthroat trout ingested by grizzly bears living in the Yellowstone Lake area. The method utilized (i) the relatively high, naturally occurring concentration of mercury in Yellowstone Lake cutthroat trout (508 ± 93 ppb) and its virtual absence in all other bear foods (6 ppb), (ii) hair snares to remotely collect hair from bears visiting spawning cutthroat trout streams between 1997 and 2000, (iii) DNA analyses to identify the individual and sex of grizzly bears leaving a hair sample, (iv) feeding trials with captive bears to develop relationships between fish and mercury intake and hair mercury concentrations, and (v) mercury analyses of hair collected from wild bears to estimate the amount of trout consumed by each bear. Male grizzly bears consumed an average of 5 times more trout/kg bear than did female grizzly bears. Estimated cutthroat trout intake per year by the grizzly bear population was only a small fraction of that estimated by previous investigators, and males consumed 92% of all trout ingested by grizzly bears.

  11. Variations in the boron isotopic composition of the Yellowstone hotspot identified through in situ SHRIMP-RG analysis of quartz-hosted melt inclusions

    NASA Astrophysics Data System (ADS)

    Benson, T. R.; Coble, M. A.

    2017-12-01

    New δ11B and trace element compositions of quartz-hosted melt inclusions were measured using the SHRIMP-RG from rhyolites sampled along the Yellowstone hotspot trend. We identify an abrupt change in boron composition coincident with the increased thickness of felsic continental crust across the North American craton margin. The 2.1 Ma Huckleberry Ridge Tuff from the Yellowstone Plateau Volcanic Field, Wyoming, has δ11B = -8 ‰ and B/Nb = 0.4. These values are similar to hotspot rhyolites reported for Yellowstone and Bruneau-Jarbidge centers, and reflect the strong influence from interaction with felsic crust. West of the 87Sr/86Sr 0.704 isopleth, where the crust is comprised of accreted island arc terranes, eruption of 16 Ma magmas of the High Rock Caldera Complex (Nevada) related to initial impingement of the Yellowstone plume head have the highest δ11B (-0.5 - 1.0 ‰) and B/Nb (2 - 3) measured in this study. These values overlap those of the younger High Lava Plains rhyolites in central Oregon, which formed in crust similar in composition to High Rock. Contemporaneous with High Rock volcanism, magmas erupted at the McDermitt Volcanic Field (Nevada and Oregon) formed in crust transitional between the accreted terranes and the felsic continental craton (between the 0.704 and 0.706 isopleths). Accordingly, B values from this field are transitional between the High Rock and cratonic Yellowstone hotspot magmas, with δ11B = -3 ‰ and B/Nb = 1. Despite the relatively high analytical uncertainty of measurements on SHRIMP-RG ( ± 1-2 ‰), variations between ignimbrites and lavas from a nested caldera complex in the northern McDermitt Volcanic Field indicate that both δ18O and δ11B behave similarly, generally decreasing with time within an individual system as magmas assimilate increasing proportions of 18O- and 11B-depleted hydrothermally altered crust. The spatial variation in [B] and δ11B along the Yellowstone hotspot track are similar to the variation

  12. Complex archaea that bridge the gap between prokaryotes and eukaryotes

    PubMed Central

    Martijn, Joran; Lind, Anders E.; van Eijk, Roel; Schleper, Christa; Guy, Lionel; Ettema, Thijs J. G.

    2015-01-01

    The origin of the eukaryotic cell remains one of the most contentious puzzles in modern biology. Recent studies have provided support for the emergence of the eukaryotic host cell from within the archaeal domain of life, but the identity and nature of the putative archaeal ancestor remain a subject of debate. Here we describe the discovery of ‘Lokiarchaeota’, a novel candidate archaeal phylum, which forms a monophyletic group with eukaryotes in phylogenomic analyses, and whose genomes encode an expanded repertoire of eukaryotic signature proteins that are suggestive of sophisticated membrane remodelling capabilities. Our results provide strong support for hypotheses in which the eukaryotic host evolved from a bona fide archaeon, and demonstrate that many components that underpin eukaryote-specific features were already present in that ancestor. This provided the host with a rich genomic ‘starter-kit’ to support the increase in the cellular and genomic complexity that is characteristic of eukaryotes. PMID:25945739

  13. Vegetation Cover Change in Yellowstone National Park Detected Using Landsat Satellite Image Analysis

    NASA Technical Reports Server (NTRS)

    Potter, Christopher S.

    2015-01-01

    Results from Landsat satellite image analysis since 1987 in all unburned areas (since the 1880s) of Yellowstone National Park (YNP) showed that consistent decreases in the normalized difference vegetation index (NDVI) have been strongly dependent on periodic variations in peak annual snow water equivalents (SWE).

  14. Fire, Death, and Rebirth: A Metaphoric Analysis of the 1988 Yellowstone Fire Debate.

    ERIC Educational Resources Information Center

    Hardy-Short, Dayle C.; Short, C. Brant

    1995-01-01

    Finds that two primary archetypal metaphors--death and rebirth--emerged in the public debate concerning management of the 1988 Yellowstone forest fires. Argues that the crisis brought two competing views of public land management to the forefront: the ecological view, and the human-centered view. (SR)

  15. Database for the geologic map of Upper Geyser Basin, Yellowstone National Park, Wyoming

    USGS Publications Warehouse

    Abendini, Atosa A.; Robinson, Joel E.; Muffler, L. J. Patrick; White, D. E.; Beeson, Melvin H.; Truesdell, A. H.

    2015-01-01

    This dataset contains contacts, geologic units, and map boundaries from Miscellaneous Investigations Series Map I-1371, "The Geologic map of upper Geyser Basin, Yellowstone, National Park, Wyoming". This dataset was constructed to produce a digital geologic map as a basis for ongoing studies of hydrothermal processes.

  16. Arsenic and antimony in geothermal waters of Yellowstone National Park, Wyoming, USA

    USGS Publications Warehouse

    Stauffer, R.E.; Thompson, J.M.

    1984-01-01

    A total of 268 thermal spring samples were analyzed for total soluble As using reduced molybdenum-blue; 27 of these samples were also analyzed for total Sb using flame atomic absorption spectrometry. At Yellowstone the Cl As atomic ratio is nearly constant among neutral-alkaline springs with Cl > 100 mg L-1, and within restricted geographic areas, indicating no differential effects of adiabatic vs. conductive cooling on arsenic. The Cl As ratio increases with silica and decreases with decreasing Cl ??CO3; the latter relationship is best exemplified for springs along the extensively sampled SE-NW trend within the Lone Star-Upper-Midway Basin region. The relationship between Cl As and Cl ??CO3 at Yellowstone suggests a possible rock leaching rather than magmatic origin for much of the Park's total As flux. Condensed vapor springs are low in both As and Cl. Very high Cl As ratios ( > 1000) are associated exclusively with highly diluted (Cl < 100 mg L-1) mixed springs in the Norris and Shoshone Basins and in the Upper White Creek and Firehole Lake areas of Lower Basin. The high ratios are associated with acidity and/or oxygen and iron; they indicate precipitation of As following massive dilution of the Asbearing high-Cl parent water. Yellowstone Sb ranged from 0.009 at Mammoth to 0.166 mg L-1 at Joseph's Coat Spring. Within basins, the Cl Sb ratio increases as the Cl ??CO3 ratio decreases, in marked contrast to As. Mixed springs also have elevated Cl Sb ratios. White (1967) and Weissberg (1969) previously reported stibnite (Sb2S3), but not orpiment (As2S3), precipitating in the near surface zone of alkaline geothermal systems. ?? 1984.

  17. Environmental setting of the Yellowstone River basin, Montana, North Dakota, and Wyoming

    USGS Publications Warehouse

    Zelt, Ronald B.; Boughton, G.K.; Miller, K.A.; Mason, J.P.; Gianakos, L.M.

    1999-01-01

    Natural and anthropogenic factors influence water-quality conditions in the Yellowstone River Basin. Physiography parallels the structural geologic setting that is generally composed of several uplifts and structural basins. Contrasts in climate and vegetation reflect topographic controls and the midcontinental location of the study unit. Surface-water hydrology reflects water surpluses in mountainous areas that are dominated by snowmelt runoff, and arid to semiarid conditions in the plains that are dissected by typically irrigated valleys in the remainder of the study unit. Principal shallow aquifers are Tertiary sandstones and unconsolidated Quaternary deposits. Human population, though sparsely distributed in general, is growing most rapidly in a few urban centers and resort areas, mostly in the northwestern part of the basin. Land use is areally dominated by grazing in the basins and plains and economically dominated by mineral-extraction activities. Forests are the dominant land cover in mountainous areas. Cropland is a major land use in principal stream valleys. Water use is dominated by irrigated agriculture overall, but mining and public-supply facilities are major users of ground water. Coal and hydrocarbon production and reserves distinguish the Yellowstone River Basin as a principal energy-minerals resources region. Current metallic ore production or reserves are nationally significant for platinum-group elements and chromium.The study unit was subdivided as an initial environmental stratification for use in designing the National Water-Quality Assessment Program investigation that began in 1997. Ecoregions, geologic groups, mineral-resource areas, and general land-cover and land-use categories were used in combination to define 18 environmental settings in the Yellowstone River Basin. It is expected that these different settings will be reflected in differing water-quality or aquatic-ecological characteristics.

  18. Water chemistry and electrical conductivity database for rivers in Yellowstone National Park, Wyoming

    USGS Publications Warehouse

    Clor, Laura E.; McCleskey, R. Blaine; Huebner, Mark A.; Lowenstern, Jacob B.; Heasler, Henry P.; Mahony, Dan L.; Maloney, Tim; Evans, William C.

    2012-01-01

    This study aims to quantify relations between solute concentrations (especially chloride) and electrical conductivity for several rivers in Yellowstone National Park (YNP), by using automated samplers and conductivity meters. Norton and Friedman (1985) found that chloride concentrations and electrical conductivity have a good correlation in the Falls, Snake, Madison, and Yellowstone Rivers. However, their results are based on limited sampling and hydrologic conditions and their relation with other solutes was not determined. Once the correlations are established, conductivity measurements can then be used as a proxy for chloride concentrations, thereby enabling continuous heat-flow estimation on a much finer timescale and at lower cost than is currently possible with direct sampling. This publication serves as a repository for all data collected during the course of the study from May 2010 through July 2011, but it does not include correlations between solutes and conductivity or recommendations for quantification of chloride through continuous electrical conductivity measurements. This will be the object of a future document.

  19. Predatory behavior of grizzly bears feeding on elk calves in Yellowstone National Park

    USGS Publications Warehouse

    French, Steven P.; French, Marilynn G.

    1990-01-01

    Grizzly bears (Ursus arctos horribilis) were observed preying on elk calves (Cervus elaphus) on 60 occasions in Yellowstone National Park, with 29 confirmed kills. Some bears were deliberate predators and effectively preyed on elk calves for short periods each spring, killing up to 1 calf daily. Primary hunting techniques were searching and chasing although some bears used a variety of techniques during a single hunt. They hunted both day and night and preyed on calves in the open and in the woods. Excess killing occurred when circumstances permitted. One bear caught 5 calves in a 15-minute interval. Elk used a variety of antipredator defenses and occasionally attacked predacious bears. The current level of this feeding behavior appears to be greater than previously reported. This is probably related to the increased availability of calves providing a greater opportunity for learning, and the adaptation of a more predatory behavior by some grizzly bears in Yellowstone.

  20. Annual precipitation in the Yellowstone National Park region since AD 1173

    USGS Publications Warehouse

    Gray, Stephen T.; Graumlich, Lisa J.; Betancourt, Julio L.

    2007-01-01

    Cores and cross sections from 133 limber pine (Pinus flexilis James) and Douglas fir (Pseudotsuga menziesii (Mirbel) Franco) at four sites were used to estimate annual (July to June) precipitation in the Yellowstone National Park region for the period from AD 1173 to 1998. Examination of the long-term record shows that the early 20th century was markedly wet compared to the previous 700 yr. Extreme wet and dry years within the instrumental period fall within the range of past variability, and the magnitude of the worst-case droughts of the 20th century (AD 1930s and 1950s) was likely equaled or exceeded on numerous occasions before AD 1900. Spectral analysis showed significant decadal to multidecadal precipitation variability. At times this lower frequency variability produces strong regime-like behavior in regional precipitation, with the potential for rapid, high-amplitude switching between predominately wet and predominately dry conditions. Over multiple time scales, strong Yellowstone region precipitation anomalies were almost always associated with spatially extensive events spanning various combinations of the central and southern U.S. Rockies, the northern U.S.-Southern Canadian Rockies and the Pacific Northwest.

  1. Annual precipitation in the Yellowstone National Park region since AD 1173

    USGS Publications Warehouse

    Gray, S.T.; Graumlich, L.J.; Betancourt, J.L.

    2007-01-01

    Cores and cross sections from 133 limber pine (Pinus flexilis James) and Douglas fir (Pseudotsuga menziesii (Mirbel) Franco) at four sites were used to estimate annual (July to June) precipitation in the Yellowstone National Park region for the period from AD 1173 to 1998. Examination of the long-term record shows that the early 20th century was markedly wet compared to the previous 700??yr. Extreme wet and dry years within the instrumental period fall within the range of past variability, and the magnitude of the worst-case droughts of the 20th century (AD 1930s and 1950s) was likely equaled or exceeded on numerous occasions before AD 1900. Spectral analysis showed significant decadal to multidecadal precipitation variability. At times this lower frequency variability produces strong regime-like behavior in regional precipitation, with the potential for rapid, high-amplitude switching between predominately wet and predominately dry conditions. Over multiple time scales, strong Yellowstone region precipitation anomalies were almost always associated with spatially extensive events spanning various combinations of the central and southern U.S. Rockies, the northern U.S.-Southern Canadian Rockies and the Pacific Northwest. ?? 2007 University of Washington.

  2. Widespread presence of "bacterial-like" PPP phosphatases in eukaryotes.

    PubMed

    Andreeva, Alexandra V; Kutuzov, Mikhail A

    2004-11-19

    In eukaryotes, PPP (protein phosphatase P) family is one of the two known protein phosphatase families specific for Ser and Thr. The role of PPP phosphatases in multiple signaling pathways in eukaryotic cell has been extensively studied. Unlike eukaryotic PPP phosphatases, bacterial members of the family have broad substrate specificity or may even be Tyr-specific. Moreover, one group of bacterial PPPs are diadenosine tetraphosphatases, indicating that bacterial PPP phosphatases may not necessarily function as protein phosphatases. We describe the presence in eukaryotes of three groups of expressed genes encoding "non-conventional" phosphatases of the PPP family. These enzymes are more closely related to bacterial PPP phosphatases than to the known eukaryotic members of the family. One group, found exclusively in land plants, is most closely related to PPP phosphatases from some alpha-Proteobacteria, including Rhizobiales, Rhodobacterales and Rhodospirillaceae. This group is therefore termed Rhizobiales / Rhodobacterales / Rhodospirillaceae-like phosphatases, or Rhilphs. Phosphatases of the other group are found in Viridiplantae, Rhodophyta, Trypanosomatidae, Plasmodium and some fungi. They are structurally related to phosphatases from psychrophilic bacteria Shewanella and Colwellia, and are termed Shewanella-like phosphatases, or Shelphs. Phosphatases of the third group are distantly related to ApaH, bacterial diadenosine tetraphosphatases, and are termed ApaH-like phosphatases, or Alphs. Patchy distribution of Alphs in animals, plants, fungi, diatoms and kinetoplasts suggests that these phosphatases were present in the common ancestor of eukaryotes but were independently lost in many lineages. Rhilphs, Shelphs and Alphs form PPP clades, as divergent from "conventional" eukaryotic PPP phosphatases as they are from each other and from major bacterial clades. In addition, comparison of primary structures revealed a previously unrecognised (I/L/V)D(S/T)G motif

  3. Modeling sound due to over-snow vehicles in Yellowstone and Grand Teton National Parks

    DOT National Transportation Integrated Search

    2006-10-01

    A modified version of the FAAs Integrated Noise Model (INM) Version 6.2 was used to : model the sound of over-snow vehicles (OSVs) (snowmobiles and snowcoaches) in : Yellowstone and Grand Teton National Parks for ten modeling scenarios provided by...

  4. Phase II (baseline) report for the Greater Yellowstone Regional Traveler and Weather Information System (GYRTWIS)

    DOT National Transportation Integrated Search

    2002-09-11

    In an effort to make road and weather information more readily available to travelers and maintenance personnel, Montana is implementing the Greater Yellowstone Regional Traveler and Weather Information System (GYRTWIS). GYRTWIS replaces the existing...

  5. Origins and evolution of viruses of eukaryotes: The ultimate modularity

    DOE Office of Scientific and Technical Information (OSTI.GOV)

    Koonin, Eugene V., E-mail: koonin@ncbi.nlm.nih.gov; Dolja, Valerian V., E-mail: doljav@science.oregonstate.edu; Krupovic, Mart, E-mail: krupovic@pasteur.fr

    2015-05-15

    Viruses and other selfish genetic elements are dominant entities in the biosphere, with respect to both physical abundance and genetic diversity. Various selfish elements parasitize on all cellular life forms. The relative abundances of different classes of viruses are dramatically different between prokaryotes and eukaryotes. In prokaryotes, the great majority of viruses possess double-stranded (ds) DNA genomes, with a substantial minority of single-stranded (ss) DNA viruses and only limited presence of RNA viruses. In contrast, in eukaryotes, RNA viruses account for the majority of the virome diversity although ssDNA and dsDNA viruses are common as well. Phylogenomic analysis yields tangiblemore » clues for the origins of major classes of eukaryotic viruses and in particular their likely roots in prokaryotes. Specifically, the ancestral genome of positive-strand RNA viruses of eukaryotes might have been assembled de novo from genes derived from prokaryotic retroelements and bacteria although a primordial origin of this class of viruses cannot be ruled out. Different groups of double-stranded RNA viruses derive either from dsRNA bacteriophages or from positive-strand RNA viruses. The eukaryotic ssDNA viruses apparently evolved via a fusion of genes from prokaryotic rolling circle-replicating plasmids and positive-strand RNA viruses. Different families of eukaryotic dsDNA viruses appear to have originated from specific groups of bacteriophages on at least two independent occasions. Polintons, the largest known eukaryotic transposons, predicted to also form virus particles, most likely, were the evolutionary intermediates between bacterial tectiviruses and several groups of eukaryotic dsDNA viruses including the proposed order “Megavirales” that unites diverse families of large and giant viruses. Strikingly, evolution of all classes of eukaryotic viruses appears to have involved fusion between structural and replicative gene modules derived from different

  6. Compositional patterns in the genomes of unicellular eukaryotes

    PubMed Central

    2013-01-01

    Background The genomes of multicellular eukaryotes are compartmentalized in mosaics of isochores, large and fairly homogeneous stretches of DNA that belong to a small number of families characterized by different average GC levels, by different gene concentration (that increase with GC), different chromatin structures, different replication timing in the cell cycle, and other different properties. A question raised by these basic results concerns how far back in evolution the compartmentalized organization of the eukaryotic genomes arose. Results In the present work we approached this problem by studying the compositional organization of the genomes from the unicellular eukaryotes for which full sequences are available, the sample used being representative. The average GC levels of the genomes from unicellular eukaryotes cover an extremely wide range (19%-60% GC) and the compositional patterns of individual genomes are extremely different but all genomes tested show a compositional compartmentalization. Conclusions The average GC range of the genomes of unicellular eukaryotes is very broad (as broad as that of prokaryotes) and individual compositional patterns cover a very broad range from very narrow to very complex. Both features are not surprising for organisms that are very far from each other both in terms of phylogenetic distances and of environmental life conditions. Most importantly, all genomes tested, a representative sample of all supergroups of unicellular eukaryotes, are compositionally compartmentalized, a major difference with prokaryotes. PMID:24188247

  7. Compositional patterns in the genomes of unicellular eukaryotes.

    PubMed

    Costantini, Maria; Alvarez-Valin, Fernando; Costantini, Susan; Cammarano, Rosalia; Bernardi, Giorgio

    2013-11-05

    The genomes of multicellular eukaryotes are compartmentalized in mosaics of isochores, large and fairly homogeneous stretches of DNA that belong to a small number of families characterized by different average GC levels, by different gene concentration (that increase with GC), different chromatin structures, different replication timing in the cell cycle, and other different properties. A question raised by these basic results concerns how far back in evolution the compartmentalized organization of the eukaryotic genomes arose. In the present work we approached this problem by studying the compositional organization of the genomes from the unicellular eukaryotes for which full sequences are available, the sample used being representative. The average GC levels of the genomes from unicellular eukaryotes cover an extremely wide range (19%-60% GC) and the compositional patterns of individual genomes are extremely different but all genomes tested show a compositional compartmentalization. The average GC range of the genomes of unicellular eukaryotes is very broad (as broad as that of prokaryotes) and individual compositional patterns cover a very broad range from very narrow to very complex. Both features are not surprising for organisms that are very far from each other both in terms of phylogenetic distances and of environmental life conditions. Most importantly, all genomes tested, a representative sample of all supergroups of unicellular eukaryotes, are compositionally compartmentalized, a major difference with prokaryotes.

  8. Molecular Characterization of Copper and Cadmium Resistance Determinants in the Biomining Thermoacidophilic Archaeon Sulfolobus metallicus

    PubMed Central

    Orell, Alvaro; Remonsellez, Francisco; Arancibia, Rafaela; Jerez, Carlos A.

    2013-01-01

    Sulfolobus metallicus is a thermoacidophilic crenarchaeon used in high-temperature bioleaching processes that is able to grow under stressing conditions such as high concentrations of heavy metals. Nevertheless, the genetic and biochemical mechanisms responsible for heavy metal resistance in S. metallicus remain uncharacterized. Proteomic analysis of S. metallicus cells exposed to 100 mM Cu revealed that 18 out of 30 upregulated proteins are related to the production and conversion of energy, amino acids biosynthesis, and stress responses. Ten of these last proteins were also up-regulated in S. metallicus treated in the presence of 1 mM Cd suggesting that at least in part, a common general response to these two heavy metals. The S. metallicus genome contained two complete cop gene clusters, each encoding a metallochaperone (CopM), a Cu-exporting ATPase (CopA), and a transcriptional regulator (CopT). Transcriptional expression analysis revealed that copM and copA from each cop gene cluster were cotranscribed and their transcript levels increased when S. metallicus was grown either in the presence of Cu or using chalcopyrite (CuFeS2) as oxidizable substrate. This study shows for the first time the presence of a duplicated version of the cop gene cluster in Archaea and characterizes some of the Cu and Cd resistance determinants in a thermophilic archaeon employed for industrial biomining. PMID:23509422

  9. Molecular characterization of copper and cadmium resistance determinants in the biomining thermoacidophilic archaeon Sulfolobus metallicus.

    PubMed

    Orell, Alvaro; Remonsellez, Francisco; Arancibia, Rafaela; Jerez, Carlos A

    2013-01-01

    Sulfolobus metallicus is a thermoacidophilic crenarchaeon used in high-temperature bioleaching processes that is able to grow under stressing conditions such as high concentrations of heavy metals. Nevertheless, the genetic and biochemical mechanisms responsible for heavy metal resistance in S. metallicus remain uncharacterized. Proteomic analysis of S. metallicus cells exposed to 100 mM Cu revealed that 18 out of 30 upregulated proteins are related to the production and conversion of energy, amino acids biosynthesis, and stress responses. Ten of these last proteins were also up-regulated in S. metallicus treated in the presence of 1 mM Cd suggesting that at least in part, a common general response to these two heavy metals. The S. metallicus genome contained two complete cop gene clusters, each encoding a metallochaperone (CopM), a Cu-exporting ATPase (CopA), and a transcriptional regulator (CopT). Transcriptional expression analysis revealed that copM and copA from each cop gene cluster were cotranscribed and their transcript levels increased when S. metallicus was grown either in the presence of Cu or using chalcopyrite (CuFeS2) as oxidizable substrate. This study shows for the first time the presence of a duplicated version of the cop gene cluster in Archaea and characterizes some of the Cu and Cd resistance determinants in a thermophilic archaeon employed for industrial biomining.

  10. VapC toxins drive cellular dormancy under uranium stress for the extreme thermoacidophile Metallosphaera prunae.

    PubMed

    Mukherjee, Arpan; Wheaton, Garrett H; Counts, James A; Ijeomah, Brenda; Desai, Jigar; Kelly, Robert M

    2017-07-01

    When abruptly exposed to toxic levels of hexavalent uranium, the extremely thermoacidophilic archaeon Metallosphaera prunae, originally isolated from an abandoned uranium mine, ceased to grow, and concomitantly exhibited heightened levels of cytosolic ribonuclease activity that corresponded to substantial degradation of cellular RNA. The M. prunae transcriptome during 'uranium-shock' implicated VapC toxins as possible causative agents of the observed RNA degradation. Identifiable VapC toxins and PIN-domain proteins encoded in the M. prunae genome were produced and characterized, three of which (VapC4, VapC7, VapC8) substantially degraded M. prunae rRNA in vitro. RNA cleavage specificity for these VapCs mapped to motifs within M. prunae rRNA. Furthermore, based on frequency of cleavage sequences, putative target mRNAs for these VapCs were identified; these were closely associated with translation, transcription, and replication. It is interesting to note that Metallosphaera sedula, a member of the same genus and which has a nearly identical genome sequence but not isolated from a uranium-rich biotope, showed no evidence of dormancy when exposed to this metal. M. prunae utilizes VapC toxins for post-transcriptional regulation under uranium stress to enter a cellular dormant state, thereby providing an adaptive response to what would otherwise be a deleterious environmental perturbation. © 2017 Society for Applied Microbiology and John Wiley & Sons Ltd.

  11. Quartz phenocrysts preserve volcanic stresses at Long Valley and Yellowstone calderas

    NASA Astrophysics Data System (ADS)

    Befus, K. S.; Leonhardi, T. C.; Manga, M.; Tamura, N.; Stan, C. V.

    2016-12-01

    Magmatic processes and eruptions are the consequence of stresses active in volcanic environments. Few techniques are presently available to quantify those stresses because they operate in subsurface and/or hazardous environments, and thus new techniques are needed to advance our understanding of key processes. Here, we provide a dataset of volcanic stresses that were imparted to quartz crystals that traveled through, and were hosted within, pyroclastic and effusive eruptions from Long Valley and Yellowstone calderas. We measured crystal lattice deformation with submicron spatial resolution using the synchrotron X-ray microdiffraction beamline (12.3.2) at the Advanced Light Source, Lawrence Berkeley National Laboratory. Quartz from all units produces diffraction patterns with residual strains locked in the crystal lattice. We used Hooke's Law and the stiffness constants of quartz to calculate the stresses that caused the preserved residual strains. At Long Valley caldera, quartz preserves stresses of 187±80 MPa within pumice clasts in the F1 fall unit of the Bishop Tuff, and preserves stresses of 120±45 MPa from the Bishop Tuff welded ignimbrite. At Yellowstone caldera quartz preserves stresses of 115±30 and 140±60 MPa within pumices from the basal fall units of the Mesa Falls Tuff and the Tuff of Bluff Point, respectively. Quartz from near-vent and flow-front samples from Summit Lake lava flow preserves stresses up to 130 MPa, and show no variation with distance travelled. We believe that subsurface processes cause the measured residual stresses, but it remains unclear if they are relicts of fragmentation or from the magma chamber. The residual stresses from both Long Valley and Yellowstone samples roughly correlate to lithostatic pressures estimated for the respective pre-eruption magma storage depths. It is possible that residual stress in quartz provides a new geobarometer for crystallization pressure. Moving forward, we will continue to perform analyses and

  12. A Full Snow Season in Yellowstone: A Database of Restored Aqua Band 6

    NASA Technical Reports Server (NTRS)

    Gladkova, Irina; Grossberg, Michael; Bonev, George; Romanov, Peter; Riggs, George; Hall, Dorothy

    2013-01-01

    The algorithms for estimating snow extent for the Moderate Resolution Imaging Spectroradiometer (MODIS) optimally use the 1.6- m channel which is unavailable for MODIS on Aqua due to detector damage. As a test bed to demonstrate that Aqua band 6 can be restored, we chose the area surrounding Yellowstone and Grand Teton national parks. In such rugged and difficult-to-access terrain, satellite images are particularly important for providing an estimation of snow-cover extent. For the full 2010-2011 snow season covering the Yellowstone region, we have used quantitative image restoration to create a database of restored Aqua band 6. The database includes restored radiances, normalized vegetation index, normalized snow index, thermal data, and band-6-based snow-map products. The restored Aqua-band-6 data have also been regridded and combined with Terra data to produce a snow-cover map that utilizes both Terra and Aqua snow maps. Using this database, we show that the restored Aqua-band-6-based snow-cover extent has a comparable performance with respect to ground stations to the one based on Terra. The result of a restored band 6 from Aqua is that we have an additional band-6 image of the Yellowstone region each day. This image can be used to mitigate cloud occlusion, using the same algorithms used for band 6 on Terra. We show an application of this database of restored band-6 images to illustrate the value of creating a cloud gap filling using the National Aeronautics and Space Administration s operational cloud masks and data from both Aqua and Terra.

  13. Tree-ring 14C links seismic swarm to CO2 spike at Yellowstone, USA

    USGS Publications Warehouse

    Evans, William C.; Bergfeld, D.; McGeehin, J.P.; King, J.C.; Heasler, H.

    2010-01-01

    Mechanisms to explain swarms of shallow seismicity and inflation-deflation cycles at Yellowstone caldera (western United States) commonly invoke episodic escape of magma-derived brines or gases from the ductile zone, but no correlative changes in the surface efflux of magmatic constituents have ever been documented. Our analysis of individual growth rings in a tree core from the Mud Volcano thermal area within the caldera links a sharp ~25% drop in 14C to a local seismic swarm in 1978. The implied fivefold increase in CO2 emissions clearly associates swarm seismicity with upflow of magma-derived fluid and shows that pulses of magmatic CO2 can rapidly traverse the 5-kmthick brittle zone, even through Yellowstone's enormous hydrothermal reservoir. The 1978 event predates annual deformation surveys, but recognized connections between subsequent seismic swarms and changes in deformation suggest that CO2 might drive both processes. ?? 2010 Geological Society of America.

  14. Chemical analyses of hot springs, pools, geysers, and surface waters from Yellowstone National Park, Wyoming, and vicinity, 1974-1975

    USGS Publications Warehouse

    Ball, James W.; Nordstrom, D. Kirk; Jenne, Everett A.; Vivit, Davison V.

    1998-01-01

    This report presents all analytical determinations for samples collected from Yellowstone National Park and vicinity during 1974 and 1975. Water temperature, pH, Eh, and dissolved O2 were determined on-site. Total alkalinity and F were determined on the day of sample collection. Flame atomic-absorption spectrometry was used to determine concentrations of Li, Na, K, Ca, and Mg. Ultraviolet/visible spectrophotometry was used to determine concentrations of Fe(II), Fe(III), As(III), and As(V). Direct-current plasma-optical-emission spectrometry was used to determine the concentrations of B, Ba, Cd, Cs, Cu, Mn, Ni, Pb, Rb, Sr, and Zn. Two samples collected from Yellowstone Park in June 1974 were used as reference samples for testing the plasma analytical method. Results of these tests demonstrate acceptable precision for all detectable elements. Charge imbalance calculations revealed a small number of samples that may have been subject to measurement errors in pH or alkalinity. These data represent some of the most complete analyses of Yellowstone waters available.

  15. Conservation and Variability of Meiosis Across the Eukaryotes.

    PubMed

    Loidl, Josef

    2016-11-23

    Comparisons among a variety of eukaryotes have revealed considerable variability in the structures and processes involved in their meiosis. Nevertheless, conventional forms of meiosis occur in all major groups of eukaryotes, including early-branching protists. This finding confirms that meiosis originated in the common ancestor of all eukaryotes and suggests that primordial meiosis may have had many characteristics in common with conventional extant meiosis. However, it is possible that the synaptonemal complex and the delicate crossover control related to its presence were later acquisitions. Later still, modifications to meiotic processes occurred within different groups of eukaryotes. Better knowledge on the spectrum of derived and uncommon forms of meiosis will improve our understanding of many still mysterious aspects of the meiotic process and help to explain the evolutionary basis of functional adaptations to the meiotic program.

  16. Mantle-lithosphere interaction beneath the Yellowstone-Snake River province

    NASA Astrophysics Data System (ADS)

    van Keken, P. E.; Lin, S.

    2006-12-01

    The Yellowstone-Snake River province (YSRP) is one the few currently active continental hotspot locations and the only one with a clear age progression from 16-17 Ma eruptions at the Oregon-Nevada border to the present day activity at in Western Wyoming. The province has a number of characteristics that are quite similar to oceanic hotspot regions, which include a topographic bulge and geoid anomaly. The initial silicic magmatism is contemporaneous with the Columbia River Basalts, but this would require significant northward transport of basalt from the hotspot track, which is potentially accommodated by lateral transport in the crust or by a sideways transport from more competent lithosphere to a weaker spot. We will present 3D models of plumes and plume heads interacting with the lithosphere for the YSRP following the approach of Lin et al. (2005). We are particularly interested in the role of the variable properties of the lithosphere and surface tectonics influence the magmatic emplacement. We investigate the type conditions under which we can generate the Columbia River Basalts as a part of a single Yellowstone plume rising below the western US. This provides important estimates of the original size of the plume head, the current buoyancy flux and the lateral transport of mantle below the lithosphere. S.C. Lin, B.Y. Kuo, L.Y. Chiao, P.E. van Keken, Thermal plume models and melt generation in East Africa: A dynamical modeling approach, Earth Planet. Sci. Lett., 237, 175-192, 2005.

  17. Ribosomal RNA sequence suggest microsporidia are extremely ancient eukaryotes

    NASA Technical Reports Server (NTRS)

    Vossbrinck, C. R.; Maddox, J. V.; Friedman, S.; Debrunner-Vossbrinck, B. A.; Woese, C. R.

    1987-01-01

    A comparative sequence analysis of the 18S small subunit ribosomal RNA (rRNA) of the microsporidium Vairimorpha necatrix is presented. The results show that this rRNA sequence is more unlike those of other eukaryotes than any known eukaryote rRNA sequence. It is concluded that the lineage leading to microsporidia branched very early from that leading to other eukaryotes.

  18. Consequences of fire on aquatic nitrate and phosphate dynamics in Yellowstone National Park

    Treesearch

    James A. Brass; Vincent G. Ambrosia; Philip J. Riggan; Paul D. Sebesta

    1996-01-01

    Airborne remotely sensed data were collected and analyzed during and following the 1988 Greater Yellowstone Ecosystem (GYE) fires in order to characterize the fire front movements, burn intensities and various vegetative components of selected watersheds. Remotely sensed data were used to categorize the burn intensities as: severely burned, moderately burned, mixed...

  19. Geophagy by yellowstone grizzly bears

    USGS Publications Warehouse

    Mattson, D.J.; Green, G.I.; Swalley, R.

    1999-01-01

    We documented 12 sites in the Yellowstone ecosystem where grizzly bears (Ursus arctos horribilis) had purposefully consumed soil (an activity known as geophagy). We also documented soil in numerous grizzly bear feces. Geophagy primarily occurred at sites barren of vegetation where surficial geology had been modified by geothermal activity. There was no evidence of ungulate use at most sites. Purposeful consumption of soil by bears peaked first from March to May and again from August to October, synchronous with peaks in consumption of ungulate meat and mushrooms. Geophageous soils were distinguished from ungulate mineral licks and soils in general by exceptionally high concentrations of potassium (K) and high concentrations of magnesium (Mg) and sulphur (S). Our results do not support the hypotheses that bears were consuming soil to detoxify secondary compounds in grazed foliage, as postulated for primates, or to supplement dietary sodium, as known for ungulates. Our results suggest that grizzly bears could have been consuming soil as an anti-diarrheal.

  20. Eukaryotic Cell Panorama

    ERIC Educational Resources Information Center

    Goodsell, David S.

    2011-01-01

    Diverse biological data may be used to create illustrations of molecules in their cellular context. This report describes the scientific results that support an illustration of a eukaryotic cell, enlarged by one million times to show the distribution and arrangement of macromolecules. The panoramic cross section includes eight panels that extend…

  1. Evaluating Support for the Current Classification of Eukaryotic Diversity

    PubMed Central

    Parfrey, Laura Wegener; Barbero, Erika; Lasser, Elyse; Dunthorn, Micah; Bhattacharya, Debashish; Patterson, David J; Katz, Laura A

    2006-01-01

    Perspectives on the classification of eukaryotic diversity have changed rapidly in recent years, as the four eukaryotic groups within the five-kingdom classification—plants, animals, fungi, and protists—have been transformed through numerous permutations into the current system of six “supergroups.” The intent of the supergroup classification system is to unite microbial and macroscopic eukaryotes based on phylogenetic inference. This supergroup approach is increasing in popularity in the literature and is appearing in introductory biology textbooks. We evaluate the stability and support for the current six-supergroup classification of eukaryotes based on molecular genealogies. We assess three aspects of each supergroup: (1) the stability of its taxonomy, (2) the support for monophyly (single evolutionary origin) in molecular analyses targeting a supergroup, and (3) the support for monophyly when a supergroup is included as an out-group in phylogenetic studies targeting other taxa. Our analysis demonstrates that supergroup taxonomies are unstable and that support for groups varies tremendously, indicating that the current classification scheme of eukaryotes is likely premature. We highlight several trends contributing to the instability and discuss the requirements for establishing robust clades within the eukaryotic tree of life. PMID:17194223

  2. 77 FR 38824 - Winter Use Plan, Supplemental Draft Environmental Impact Statement, Yellowstone National Park

    Federal Register 2010, 2011, 2012, 2013, 2014

    2012-06-29

    ... made publicly available at any time. While you can ask us in your comment to withhold your personal... DEPARTMENT OF THE INTERIOR National Park Service [2310-0070-422] Winter Use Plan, Supplemental Draft Environmental Impact Statement, Yellowstone National Park AGENCY: National Park Service, Interior...

  3. Grizzly bear predation links the loss of native trout to the demography of migratory elk in Yellowstone.

    PubMed

    Middleton, Arthur D; Morrison, Thomas A; Fortin, Jennifer K; Robbins, Charles T; Proffitt, Kelly M; White, P J; McWhirter, Douglas E; Koel, Todd M; Brimeyer, Douglas G; Fairbanks, W Sue; Kauffman, Matthew J

    2013-07-07

    The loss of aquatic subsidies such as spawning salmonids is known to threaten a number of terrestrial predators, but the effects on alternative prey species are poorly understood. At the heart of the Greater Yellowstone ecosystem, an invasion of lake trout has driven a dramatic decline of native cutthroat trout that migrate up the shallow tributaries of Yellowstone Lake to spawn each spring. We explore whether this decline has amplified the effect of a generalist consumer, the grizzly bear, on populations of migratory elk that summer inside Yellowstone National Park (YNP). Recent studies of bear diets and elk populations indicate that the decline in cutthroat trout has contributed to increased predation by grizzly bears on the calves of migratory elk. Additionally, a demographic model that incorporates the increase in predation suggests that the magnitude of this diet shift has been sufficient to reduce elk calf recruitment (4-16%) and population growth (2-11%). The disruption of this aquatic-terrestrial linkage could permanently alter native species interactions in YNP. Although many recent ecological changes in YNP have been attributed to the recovery of large carnivores--particularly wolves--our work highlights a growing role of human impacts on the foraging behaviour of grizzly bears.

  4. Grizzly bear predation links the loss of native trout to the demography of migratory elk in Yellowstone

    PubMed Central

    Middleton, Arthur D.; Morrison, Thomas A.; Fortin, Jennifer K.; Robbins, Charles T.; Proffitt, Kelly M.; White, P. J.; McWhirter, Douglas E.; Koel, Todd M.; Brimeyer, Douglas G.; Fairbanks, W. Sue; Kauffman, Matthew J.

    2013-01-01

    The loss of aquatic subsidies such as spawning salmonids is known to threaten a number of terrestrial predators, but the effects on alternative prey species are poorly understood. At the heart of the Greater Yellowstone ecosystem, an invasion of lake trout has driven a dramatic decline of native cutthroat trout that migrate up the shallow tributaries of Yellowstone Lake to spawn each spring. We explore whether this decline has amplified the effect of a generalist consumer, the grizzly bear, on populations of migratory elk that summer inside Yellowstone National Park (YNP). Recent studies of bear diets and elk populations indicate that the decline in cutthroat trout has contributed to increased predation by grizzly bears on the calves of migratory elk. Additionally, a demographic model that incorporates the increase in predation suggests that the magnitude of this diet shift has been sufficient to reduce elk calf recruitment (4–16%) and population growth (2–11%). The disruption of this aquatic–terrestrial linkage could permanently alter native species interactions in YNP. Although many recent ecological changes in YNP have been attributed to the recovery of large carnivores—particularly wolves—our work highlights a growing role of human impacts on the foraging behaviour of grizzly bears. PMID:23677350

  5. The duration of a Yellowstone super-eruption cycle and implications for the age of the Olduvai subchron

    NASA Astrophysics Data System (ADS)

    Rivera, Tiffany A.; Darata, Rachel; Lippert, Peter C.; Jicha, Brian R.; Schmitz, Mark D.

    2017-12-01

    Small-volume rhyolitic eruptions preceding and following a caldera-forming eruption can provide insights into the tempo of eruption cycles and timing of magmatic recharge. In this contribution, high-precision 40Ar/39Ar eruption ages were obtained on the three effusive eruptions bracketing the Huckleberry Ridge Tuff, which comprise Yellowstone's first volcanic cycle. These dates are supplemented with detailed paleomagnetic and rock magnetic analyses to resolve discrepancies with previous reported stratigraphy. The Huckleberry Ridge Tuff (2.08 Ma) was preceded by an eruption at 2.14 Ma, and followed by eruptions at 1.98 and 1.95 Ma, all of which occurred during four distinct periods of geomagnetic instability within the Matuyama chron. The first volcanic cycle of Yellowstone has now been constrained to within a 200 kyr timespan, or half of the previously proposed duration, and similar to the duration of volcanic activity for caldera-forming systems in the Jemez Volcanic Field. The maximum duration for magmatic recharge for the first Yellowstone volcanic cycle is no greater than 100 kyr, and likely closer to 40 kyr. Furthermore, the combined 40Ar/39Ar eruption ages and paleomagnetic results provide polarity anchors for the Pre-Olduvai excursion and Olduvai subchron, which are often used as tie-points in studies of early Pleistocene hominin evolution.

  6. Grizzly bear predation links the loss of native trout to the demography of migratory elk in Yellowstone

    USGS Publications Warehouse

    Middleton, Arthur D.; Morrison, Thomas A.; Fortin, Jennifer K.; Robbins, Charles T.; Proffitt, Kelly M.; White, P.J.; McWhirter, Douglas E.; Koel, Todd M.; Brimeyer, Douglas G.; Fairbanks, W. Sue; Kauffman, Matthew J.

    2013-01-01

    The loss of aquatic subsidies such as spawning salmonids is known to threaten a number of terrestrial predators, but the effects on alternative prey species are poorly understood. At the heart of the Greater Yellowstone ecosystem, an invasion of lake trout has driven a dramatic decline of native cutthroat trout that migrate up the shallow tributaries of Yellowstone Lake to spawn each spring. We explore whether this decline has amplified the effect of a generalist consumer, the grizzly bear, on populations of migratory elk that summer inside Yellowstone National Park (YNP). Recent studies of bear diets and elk populations indicate that the decline in cutthroat trout has contributed to increased predation by grizzly bears on the calves of migratory elk. Additionally, a demographic model that incorporates the increase in predation suggests that the magnitude of this diet shift has been sufficient to reduce elk calf recruitment (4–16%) and population growth (2–11%). The disruption of this aquatic–terrestrial linkage could permanently alter native species interactions in YNP. Although many recent ecological changes in YNP have been attributed to the recovery of large carnivores—particularly wolves—our work highlights a growing role of human impacts on the foraging behaviour of grizzly bears.

  7. High Conformational Stability of Secreted Eukaryotic Catalase-peroxidases

    PubMed Central

    Zámocký, Marcel; García-Fernández, Queralt; Gasselhuber, Bernhard; Jakopitsch, Christa; Furtmüller, Paul G.; Loewen, Peter C.; Fita, Ignacio; Obinger, Christian; Carpena, Xavi

    2012-01-01

    Catalase-peroxidases (KatGs) are bifunctional heme enzymes widely spread in archaea, bacteria, and lower eukaryotes. Here we present the first crystal structure (1.55 Å resolution) of an eukaryotic KatG, the extracellular or secreted enzyme from the phytopathogenic fungus Magnaporthe grisea. The heme cavity of the homodimeric enzyme is similar to prokaryotic KatGs including the unique distal +Met-Tyr-Trp adduct (where the Trp is further modified by peroxidation) and its associated mobile arginine. The structure also revealed several conspicuous peculiarities that are fully conserved in all secreted eukaryotic KatGs. Peculiarities include the wrapping at the dimer interface of the N-terminal elongations from the two subunits and cysteine residues that cross-link the two subunits. Differential scanning calorimetry and temperature- and urea-mediated unfolding followed by UV-visible, circular dichroism, and fluorescence spectroscopy combined with site-directed mutagenesis demonstrated that secreted eukaryotic KatGs have a significantly higher conformational stability as well as a different unfolding pattern when compared with intracellular eukaryotic and prokaryotic catalase-peroxidases. We discuss these properties with respect to the structure as well as the postulated roles of this metalloenzyme in host-pathogen interactions. PMID:22822072

  8. Endosymbiosis and the design of eukaryotic electron transport.

    PubMed

    Berry, Stephan

    2003-09-30

    The bioenergetic organelles of eukaryotic cells, mitochondria and chloroplasts, are derived from endosymbiotic bacteria. Their electron transport chains (ETCs) resemble those of free-living bacteria, but were tailored for energy transformation within the host cell. Parallel evolutionary processes in mitochondria and chloroplasts include reductive as well as expansive events: On one hand, bacterial complexes were lost in eukaryotes with a concomitant loss of metabolic flexibility. On the other hand, new subunits have been added to the remaining bacterial complexes, new complexes have been introduced, and elaborate folding patterns of the thylakoid and mitochondrial inner membranes have emerged. Some bacterial pathways were reinvented independently by eukaryotes, such as parallel routes for quinol oxidation or the use of various anaerobic electron acceptors. Multicellular organization and ontogenetic cycles in eukaryotes gave rise to further modifications of the bioenergetic organelles. Besides mitochondria and chloroplasts, eukaryotes have ETCs in other membranes, such as the plasma membrane (PM) redox system, or the cytochrome P450 (CYP) system. These systems have fewer complexes and simpler branching patterns than those in energy-transforming organelles, and they are often adapted to non-bioenergetic functions such as detoxification or cellular defense.

  9. Genome-reconstruction for eukaryotes from complex natural microbial communities.

    PubMed

    West, Patrick T; Probst, Alexander J; Grigoriev, Igor V; Thomas, Brian C; Banfield, Jillian F

    2018-04-01

    Microbial eukaryotes are integral components of natural microbial communities, and their inclusion is critical for many ecosystem studies, yet the majority of published metagenome analyses ignore eukaryotes. In order to include eukaryotes in environmental studies, we propose a method to recover eukaryotic genomes from complex metagenomic samples. A key step for genome recovery is separation of eukaryotic and prokaryotic fragments. We developed a k -mer-based strategy, EukRep, for eukaryotic sequence identification and applied it to environmental samples to show that it enables genome recovery, genome completeness evaluation, and prediction of metabolic potential. We used this approach to test the effect of addition of organic carbon on a geyser-associated microbial community and detected a substantial change of the community metabolism, with selection against almost all candidate phyla bacteria and archaea and for eukaryotes. Near complete genomes were reconstructed for three fungi placed within the Eurotiomycetes and an arthropod. While carbon fixation and sulfur oxidation were important functions in the geyser community prior to carbon addition, the organic carbon-impacted community showed enrichment for secreted proteases, secreted lipases, cellulose targeting CAZymes, and methanol oxidation. We demonstrate the broader utility of EukRep by reconstructing and evaluating relatively high-quality fungal, protist, and rotifer genomes from complex environmental samples. This approach opens the way for cultivation-independent analyses of whole microbial communities. © 2018 West et al.; Published by Cold Spring Harbor Laboratory Press.

  10. A review of crust and upper mantle structure studies of the Snake River Plain-Yellowstone volcanic system: A major lithospheric anomaly in the western U.S.A.

    USGS Publications Warehouse

    Iyer, H.M.

    1984-01-01

    The Snake River Plain-Yellowstone volcanic system is one of the largest, basaltic, volcanic field in the world. Here, there is clear evidence for northeasterly progression of rhyolitic volcanism with its present position in Yellowstone. Many theories have been advanced for the origin of the Snake River Plain-Yellowstone system. Yellowstone and Eastern Snake River Plain have been studied intensively using various geophysical techniques. Some sparse geophysical data are available for the Western Snake River Plain as well. Teleseismic data show the presence of a large anomalous body with low P- and S-wave velocities in the crust and upper mantle under the Yellowstone caldera. A similar body in which compressional wave velocity is lower than in the surrounding rock is present under the Eastern Snake River Plain. No data on upper mantle anomalies are available for the Western Snake River Plain. Detailed seismic refraction data for the Eastern Snake River Plain show strong lateral heterogeneities and suggest thinning of the granitic crust from below by mafic intrusion. Available data for the Western Snake River Plain also show similar thinning of the upper crust and its replacement by mafic material. The seismic refraction results in Yellowstone show no evidence of the low-velocity anomalies in the lower crust suggested by teleseismic P-delay data and interpreted as due to extensive partial melting. However, the seismic refraction models indicate lower-than-normal velocities and strong lateral inhomogeneities in the upper crust. Particularly obvious in the refraction data are two regions of very low seismic velocities near the Mallard Eake and Sour Creek resurgent domes in the Yellowstone caldera. The low-velocity body near the Sour Creek resurgent dome is intepreted as partially molten rock. Together with other geophysical and thermal data, the seismic results indicate that a sub-lithospheric thermal anomaly is responsible for the time-progressive volcanism along the

  11. Unitary circular code motifs in genomes of eukaryotes.

    PubMed

    El Soufi, Karim; Michel, Christian J

    A set X of 20 trinucleotides was identified in genes of bacteria, eukaryotes, plasmids and viruses, which has in average the highest occurrence in reading frame compared to its two shifted frames (Michel, 2015; Arquès and Michel, 1996). This set X has an interesting mathematical property as X is a circular code (Arquès and Michel, 1996). Thus, the motifs from this circular code X, called X motifs, have the property to always retrieve, synchronize and maintain the reading frame in genes. The origin of this circular code X in genes is an open problem since its discovery in 1996. Here, we first show that the unitary circular codes (UCC), i.e. sets of one word, allow to generate unitary circular code motifs (UCC motifs), i.e. a concatenation of the same motif (simple repeats) leading to low complexity DNA. Three classes of UCC motifs are studied here: repeated dinucleotides (D + motifs), repeated trinucleotides (T + motifs) and repeated tetranucleotides (T + motifs). Thus, the D + , T + and T + motifs allow to retrieve, synchronize and maintain a frame modulo 2, modulo 3 and modulo 4, respectively, and their shifted frames (1 modulo 2; 1 and 2 modulo 3; 1, 2 and 3 modulo 4 according to the C 2 , C 3 and C 4 properties, respectively) in the DNA sequences. The statistical distribution of the D + , T + and T + motifs is analyzed in the genomes of eukaryotes. A UCC motif and its comp lementary UCC motif have the same distribution in the eukaryotic genomes. Furthermore, a UCC motif and its complementary UCC motif have increasing occurrences contrary to their number of hydrogen bonds, very significant with the T + motifs. The longest D + , T + and T + motifs in the studied eukaryotic genomes are also given. Surprisingly, a scarcity of repeated trinucleotides (T + motifs) in the large eukaryotic genomes is observed compared to the D + and T + motifs. This result has been investigated and may be explained by two outcomes. Repeated trinucleotides (T + motifs) are identified

  12. The molecular mechanics of eukaryotic translation.

    PubMed

    Kapp, Lee D; Lorsch, Jon R

    2004-01-01

    Great advances have been made in the past three decades in understanding the molecular mechanics underlying protein synthesis in bacteria, but our understanding of the corresponding events in eukaryotic organisms is only beginning to catch up. In this review we describe the current state of our knowledge and ignorance of the molecular mechanics underlying eukaryotic translation. We discuss the mechanisms conserved across the three kingdoms of life as well as the important divergences that have taken place in the pathway.

  13. Rapid heterogeneous assembly of multiple magma reservoirs prior to Yellowstone supereruptions.

    PubMed

    Wotzlaw, Jörn-Frederik; Bindeman, Ilya N; Stern, Richard A; D'Abzac, Francois-Xavier; Schaltegger, Urs

    2015-09-10

    Large-volume caldera-forming eruptions of silicic magmas are an important feature of continental volcanism. The timescales and mechanisms of assembly of the magma reservoirs that feed such eruptions as well as the durations and physical conditions of upper-crustal storage remain highly debated topics in volcanology. Here we explore a comprehensive data set of isotopic (O, Hf) and chemical proxies in precisely U-Pb dated zircon crystals from all caldera-forming eruptions of Yellowstone supervolcano. Analysed zircons record rapid assembly of multiple magma reservoirs by repeated injections of isotopically heterogeneous magma batches and short pre-eruption storage times of 10(3) to 10(4) years. Decoupled oxygen-hafnium isotope systematics suggest a complex source for these magmas involving variable amounts of differentiated mantle-derived melt, Archean crust and hydrothermally altered shallow-crustal rocks. These data demonstrate that complex magma reservoirs with multiple sub-chambers are a common feature of rift- and hotspot related supervolcanoes. The short duration of reservoir assembly documents rapid crustal remelting and two to three orders of magnitude higher magma production rates beneath Yellowstone compared to continental arc volcanoes. The short pre-eruption storage times further suggest that the detection of voluminous reservoirs of eruptible magma beneath active supervolcanoes may only be possible prior to an impending eruption.

  14. Rapid heterogeneous assembly of multiple magma reservoirs prior to Yellowstone supereruptions

    PubMed Central

    Wotzlaw, Jörn-Frederik; Bindeman, Ilya N.; Stern, Richard A.; D’Abzac, Francois-Xavier; Schaltegger, Urs

    2015-01-01

    Large-volume caldera-forming eruptions of silicic magmas are an important feature of continental volcanism. The timescales and mechanisms of assembly of the magma reservoirs that feed such eruptions as well as the durations and physical conditions of upper-crustal storage remain highly debated topics in volcanology. Here we explore a comprehensive data set of isotopic (O, Hf) and chemical proxies in precisely U-Pb dated zircon crystals from all caldera-forming eruptions of Yellowstone supervolcano. Analysed zircons record rapid assembly of multiple magma reservoirs by repeated injections of isotopically heterogeneous magma batches and short pre-eruption storage times of 103 to 104 years. Decoupled oxygen-hafnium isotope systematics suggest a complex source for these magmas involving variable amounts of differentiated mantle-derived melt, Archean crust and hydrothermally altered shallow-crustal rocks. These data demonstrate that complex magma reservoirs with multiple sub-chambers are a common feature of rift- and hotspot related supervolcanoes. The short duration of reservoir assembly documents rapid crustal remelting and two to three orders of magnitude higher magma production rates beneath Yellowstone compared to continental arc volcanoes. The short pre-eruption storage times further suggest that the detection of voluminous reservoirs of eruptible magma beneath active supervolcanoes may only be possible prior to an impending eruption. PMID:26356304

  15. Beyond Agrobacterium-Mediated Transformation: Horizontal Gene Transfer from Bacteria to Eukaryotes.

    PubMed

    Lacroix, Benoît; Citovsky, Vitaly

    2018-03-03

    Besides the massive gene transfer from organelles to the nuclear genomes, which occurred during the early evolution of eukaryote lineages, the importance of horizontal gene transfer (HGT) in eukaryotes remains controversial. Yet, increasing amounts of genomic data reveal many cases of bacterium-to-eukaryote HGT that likely represent a significant force in adaptive evolution of eukaryotic species. However, DNA transfer involved in genetic transformation of plants by Agrobacterium species has traditionally been considered as the unique example of natural DNA transfer and integration into eukaryotic genomes. Recent discoveries indicate that the repertoire of donor bacterial species and of recipient eukaryotic hosts potentially are much wider than previously thought, including donor bacterial species, such as plant symbiotic nitrogen-fixing bacteria (e.g., Rhizobium etli) and animal bacterial pathogens (e.g., Bartonella henselae, Helicobacter pylori), and recipient species from virtually all eukaryotic clades. Here, we review the molecular pathways and potential mechanisms of these trans-kingdom HGT events and discuss their utilization in biotechnology and research.

  16. Continued warming could transform Greater Yellowstone fire regimes by mid-21st century

    Treesearch

    Anthony L. Westerling; Monica G. Turner; Erica A. H. Smithwick; William H. Romme; Michael G. Ryan

    2011-01-01

    Climate change is likely to alter wildfire regimes, but the magnitude and timing of potential climate-driven changes in regional fire regimes are not well understood. We considered how the occurrence, size, and spatial location of large fires might respond to climate projections in the Greater Yellowstone ecosystem (GYE) (Wyoming), a large wildland ecosystem dominated...

  17. A statistical anomaly indicates symbiotic origins of eukaryotic membranes

    PubMed Central

    Bansal, Suneyna; Mittal, Aditya

    2015-01-01

    Compositional analyses of nucleic acids and proteins have shed light on possible origins of living cells. In this work, rigorous compositional analyses of ∼5000 plasma membrane lipid constituents of 273 species in the three life domains (archaea, eubacteria, and eukaryotes) revealed a remarkable statistical paradox, indicating symbiotic origins of eukaryotic cells involving eubacteria. For lipids common to plasma membranes of the three domains, the number of carbon atoms in eubacteria was found to be similar to that in eukaryotes. However, mutually exclusive subsets of same data show exactly the opposite—the number of carbon atoms in lipids of eukaryotes was higher than in eubacteria. This statistical paradox, called Simpson's paradox, was absent for lipids in archaea and for lipids not common to plasma membranes of the three domains. This indicates the presence of interaction(s) and/or association(s) in lipids forming plasma membranes of eubacteria and eukaryotes but not for those in archaea. Further inspection of membrane lipid structures affecting physicochemical properties of plasma membranes provides the first evidence (to our knowledge) on the symbiotic origins of eukaryotic cells based on the “third front” (i.e., lipids) in addition to the growing compositional data from nucleic acids and proteins. PMID:25631820

  18. An Evolutionary Framework for Understanding the Origin of Eukaryotes

    PubMed Central

    Blackstone, Neil W.

    2016-01-01

    Two major obstacles hinder the application of evolutionary theory to the origin of eukaryotes. The first is more apparent than real—the endosymbiosis that led to the mitochondrion is often described as “non-Darwinian” because it deviates from the incremental evolution championed by the modern synthesis. Nevertheless, endosymbiosis can be accommodated by a multi-level generalization of evolutionary theory, which Darwin himself pioneered. The second obstacle is more serious—all of the major features of eukaryotes were likely present in the last eukaryotic common ancestor thus rendering comparative methods ineffective. In addition to a multi-level theory, the development of rigorous, sequence-based phylogenetic and comparative methods represents the greatest achievement of modern evolutionary theory. Nevertheless, the rapid evolution of major features in the eukaryotic stem group requires the consideration of an alternative framework. Such a framework, based on the contingent nature of these evolutionary events, is developed and illustrated with three examples: the putative intron proliferation leading to the nucleus and the cell cycle; conflict and cooperation in the origin of eukaryotic bioenergetics; and the inter-relationship between aerobic metabolism, sterol synthesis, membranes, and sex. The modern synthesis thus provides sufficient scope to develop an evolutionary framework to understand the origin of eukaryotes. PMID:27128953

  19. An Evolutionary Framework for Understanding the Origin of Eukaryotes.

    PubMed

    Blackstone, Neil W

    2016-04-27

    Two major obstacles hinder the application of evolutionary theory to the origin of eukaryotes. The first is more apparent than real-the endosymbiosis that led to the mitochondrion is often described as "non-Darwinian" because it deviates from the incremental evolution championed by the modern synthesis. Nevertheless, endosymbiosis can be accommodated by a multi-level generalization of evolutionary theory, which Darwin himself pioneered. The second obstacle is more serious-all of the major features of eukaryotes were likely present in the last eukaryotic common ancestor thus rendering comparative methods ineffective. In addition to a multi-level theory, the development of rigorous, sequence-based phylogenetic and comparative methods represents the greatest achievement of modern evolutionary theory. Nevertheless, the rapid evolution of major features in the eukaryotic stem group requires the consideration of an alternative framework. Such a framework, based on the contingent nature of these evolutionary events, is developed and illustrated with three examples: the putative intron proliferation leading to the nucleus and the cell cycle; conflict and cooperation in the origin of eukaryotic bioenergetics; and the inter-relationship between aerobic metabolism, sterol synthesis, membranes, and sex. The modern synthesis thus provides sufficient scope to develop an evolutionary framework to understand the origin of eukaryotes.

  20. Molecular paleontology and complexity in the last eukaryotic common ancestor

    PubMed Central

    Koumandou, V. Lila; Wickstead, Bill; Ginger, Michael L.; van der Giezen, Mark; Dacks, Joel B.

    2013-01-01

    Eukaryogenesis, the origin of the eukaryotic cell, represents one of the fundamental evolutionary transitions in the history of life on earth. This event, which is estimated to have occurred over one billion years ago, remains rather poorly understood. While some well-validated examples of fossil microbial eukaryotes for this time frame have been described, these can provide only basic morphology and the molecular machinery present in these organisms has remained unknown. Complete and partial genomic information has begun to fill this gap, and is being used to trace proteins and cellular traits to their roots and to provide unprecedented levels of resolution of structures, metabolic pathways and capabilities of organisms at these earliest points within the eukaryotic lineage. This is essentially allowing a molecular paleontology. What has emerged from these studies is spectacular cellular complexity prior to expansion of the eukaryotic lineages. Multiple reconstructed cellular systems indicate a very sophisticated biology, which by implication arose following the initial eukaryogenesis event but prior to eukaryotic radiation and provides a challenge in terms of explaining how these early eukaryotes arose and in understanding how they lived. Here, we provide brief overviews of several cellular systems and the major emerging conclusions, together with predictions for subsequent directions in evolution leading to extant taxa. We also consider what these reconstructions suggest about the life styles and capabilities of these earliest eukaryotes and the period of evolution between the radiation of eukaryotes and the eukaryogenesis event itself. PMID:23895660

  1. The gut eukaryotic microbiota influences the growth performance among cohabitating shrimp.

    PubMed

    Dai, Wenfang; Yu, Weina; Zhang, Jinjie; Zhu, Jinyong; Tao, Zhen; Xiong, Jinbo

    2017-08-01

    Increasing evidence has revealed a close interplay between the gut bacterial communities and host growth performance. However, until recently, studies generally ignored the contribution of eukaryotes, endobiotic organisms. To fill this gap, we used Illumina sequencing technology on eukaryotic 18S rRNA gene to compare the structures of gut eukaryotic communities among cohabitating retarded, overgrown, and normal shrimp obtained from identically managed ponds. Results showed that a significant difference between gut eukaryotic communities differed significantly between water and intestine and among three shrimp categories. Structural equation modeling revealed that changes in the gut eukaryotic community were positively related to digestive enzyme activities, which in turn influenced shrimp growth performance (λ = 0.97, P < 0.001). Overgrown shrimp exhibited a more complex and cooperative gut eukaryotic interspecies interaction than retarded and normal shrimp, which may facilitate their nutrient acquisition efficiency. Notably, the distribution of dominant eukaryotic genera and shifts in keystone species were closely concordant with shrimp growth performance. In summary, this study provides an integrated overview on direct roles of gut eukaryotic communities in shrimp growth performance instead of well-studied bacterial assembly.

  2. Archaeal and eukaryotic homologs of Hfq

    PubMed Central

    Mura, Cameron; Randolph, Peter S.; Patterson, Jennifer; Cozen, Aaron E.

    2013-01-01

    Hfq and other Sm proteins are central in RNA metabolism, forming an evolutionarily conserved family that plays key roles in RNA processing in organisms ranging from archaea to bacteria to human. Sm-based cellular pathways vary in scope from eukaryotic mRNA splicing to bacterial quorum sensing, with at least one step in each of these pathways being mediated by an RNA-associated molecular assembly built upon Sm proteins. Though the first structures of Sm assemblies were from archaeal systems, the functions of Sm-like archaeal proteins (SmAPs) remain murky. Our ignorance about SmAP biology, particularly vis-à-vis the eukaryotic and bacterial Sm homologs, can be partly reduced by leveraging the homology between these lineages to make phylogenetic inferences about Sm functions in archaea. Nevertheless, whether SmAPs are more eukaryotic (RNP scaffold) or bacterial (RNA chaperone) in character remains unclear. Thus, the archaeal domain of life is a missing link, and an opportunity, in Sm-based RNA biology. PMID:23579284

  3. [MiRNA system in unicellular eukaryotes and its evolutionary implications].

    PubMed

    Zhang, Yan-Qiong; Wen, Jian-Fan

    2010-02-01

    microRNAs (miRNAs) in higher multicellular eukaryotes have been extensively studied in recent years. Great progresses have also been achieved for miRNAs in unicellular eukaryotes. All these studies not only enrich our knowledge about the complex expression regulation system in diverse organisms, but also have evolutionary significance for understanding the origin of this system. In this review, Authors summarize the recent advance in the studies of miRNA in unicellular eukaryotes, including that on the most primitive unicellular eukaryote--Giardia. The origin and evolution of miRNA system is also discussed.

  4. RNase MRP and the RNA processing cascade in the eukaryotic ancestor.

    PubMed

    Woodhams, Michael D; Stadler, Peter F; Penny, David; Collins, Lesley J

    2007-02-08

    Within eukaryotes there is a complex cascade of RNA-based macromolecules that process other RNA molecules, especially mRNA, tRNA and rRNA. An example is RNase MRP processing ribosomal RNA (rRNA) in ribosome biogenesis. One hypothesis is that this complexity was present early in eukaryotic evolution; an alternative is that an initial simpler network later gained complexity by gene duplication in lineages that led to animals, fungi and plants. Recently there has been a rapid increase in support for the complexity-early theory because the vast majority of these RNA-processing reactions are found throughout eukaryotes, and thus were likely to be present in the last common ancestor of living eukaryotes, herein called the Eukaryotic Ancestor. We present an overview of the RNA processing cascade in the Eukaryotic Ancestor and investigate in particular, RNase MRP which was previously thought to have evolved later in eukaryotes due to its apparent limited distribution in fungi and animals and plants. Recent publications, as well as our own genomic searches, find previously unknown RNase MRP RNAs, indicating that RNase MRP has a wide distribution in eukaryotes. Combining secondary structure and promoter region analysis of RNAs for RNase MRP, along with analysis of the target substrate (rRNA), allows us to discuss this distribution in the light of eukaryotic evolution. We conclude that RNase MRP can now be placed in the RNA-processing cascade of the Eukaryotic Ancestor, highlighting the complexity of RNA-processing in early eukaryotes. Promoter analyses of MRP-RNA suggest that regulation of the critical processes of rRNA cleavage can vary, showing that even these key cellular processes (for which we expect high conservation) show some species-specific variability. We present our consensus MRP-RNA secondary structure as a useful model for further searches.

  5. Reaction kinetic analysis of the 3-hydroxypropionate/4-hydroxybutyrate CO 2 fixation cycle in extremely thermoacidophilic archaea

    DOE Office of Scientific and Technical Information (OSTI.GOV)

    Loder, Andrew J.; Han, Yejun; Hawkins, Aaron B.

    Here, the 3-hydroxypropionate/4-hydroxybutyrate (3HP/4HB) cycle fixes CO 2 in extremely thermoacidophilic archaea and holds promise for metabolic engineering because of its thermostability and potentially rapid pathway kinetics. A reaction kinetics model was developed to examine the biological and biotechnological attributes of the 3HP/4HB cycle as it operates in Metallosphaera sedula, based on previous information as well as on kinetic parameters determined here for recombinant versions of five of the cycle enzymes (malonyl-CoA/succinyl-CoA reductase, 3-hydroxypropionyl-CoA synthetase, 3-hydroxypropionyl-CoA dehydratase, acryloyl-CoA reductase, and succinic semialdehyde reductase). The model correctly predicted previously observed features of the cycle: the 35%–65% split of carbon flux throughmore » the acetyl-CoA and succinate branches, the high abundance and relative ratio of acetyl-CoA/propionyl-CoA carboxylase (ACC) and MCR, and the significance of ACC and hydroxybutyryl-CoA synthetase (HBCS) as regulated control points for the cycle. The model was then used to assess metabolic engineering strategies for incorporating CO 2 into chemical intermediates and products of biotechnological importance: acetyl-CoA, succinate, and 3-hydroxyproprionate.« less

  6. Reaction kinetic analysis of the 3-hydroxypropionate/4-hydroxybutyrate CO 2 fixation cycle in extremely thermoacidophilic archaea

    DOE PAGES

    Loder, Andrew J.; Han, Yejun; Hawkins, Aaron B.; ...

    2016-10-19

    Here, the 3-hydroxypropionate/4-hydroxybutyrate (3HP/4HB) cycle fixes CO 2 in extremely thermoacidophilic archaea and holds promise for metabolic engineering because of its thermostability and potentially rapid pathway kinetics. A reaction kinetics model was developed to examine the biological and biotechnological attributes of the 3HP/4HB cycle as it operates in Metallosphaera sedula, based on previous information as well as on kinetic parameters determined here for recombinant versions of five of the cycle enzymes (malonyl-CoA/succinyl-CoA reductase, 3-hydroxypropionyl-CoA synthetase, 3-hydroxypropionyl-CoA dehydratase, acryloyl-CoA reductase, and succinic semialdehyde reductase). The model correctly predicted previously observed features of the cycle: the 35%–65% split of carbon flux throughmore » the acetyl-CoA and succinate branches, the high abundance and relative ratio of acetyl-CoA/propionyl-CoA carboxylase (ACC) and MCR, and the significance of ACC and hydroxybutyryl-CoA synthetase (HBCS) as regulated control points for the cycle. The model was then used to assess metabolic engineering strategies for incorporating CO 2 into chemical intermediates and products of biotechnological importance: acetyl-CoA, succinate, and 3-hydroxyproprionate.« less

  7. Sequencing our way towards understanding global eukaryotic biodiversity

    PubMed Central

    Bik, Holly M.; Porazinska, Dorota L.; Creer, Simon; Caporaso, J. Gregory; Knight, Rob; Thomas, W. Kelley

    2011-01-01

    Microscopic eukaryotes are abundant, diverse, and fill critical ecological roles across every ecosystem on earth, yet there is a well-recognized gap in our understanding of their global biodiversity. Fundamental advances in DNA sequencing and bioinformatics now allow accurate en masse biodiversity assessments of microscopic eukaryotes from environmental samples. Despite a promising outlook, the field of eukaryotic marker gene surveys faces significant challenges: how to generate data that is most useful to the community, especially in the face of evolving sequencing technology and bioinformatics pipelines, and how to incorporate an expanding number of target genes. PMID:22244672

  8. The Impact of Field Experiences in Yellowstone National Park on Practice in Secondary Classrooms

    ERIC Educational Resources Information Center

    McGrew, Christopher N.

    2012-01-01

    The current study focused on how six participants of a 2009 professional development activity at Yellowstone National Park described their experience and classroom instructional impact. The author focused on words and phrases illustrating perspective gathering, reflection and public performance to determine the impact of both the experience at…

  9. River solute fluxes reflecting active hydrothermal chemical weathering of the Yellowstone Plateau Volcanic Field, USA

    USGS Publications Warehouse

    Hurwitz, S.; Evans, William C.; Lowenstern, J. B.

    2010-01-01

    In the past few decades numerous studies have quantified the load of dissolved solids in large rivers to determine chemical weathering rates in orogenic belts and volcanic areas, mainly motivated by the notion that over timescales greater than ~100kyr, silicate hydrolysis may be the dominant sink for atmospheric CO2, thus creating a feedback between climate and weathering. Here, we report the results of a detailed study during water year 2007 (October 1, 2006 to September 30, 2007) in the major rivers of the Yellowstone Plateau Volcanic Field (YPVF) which hosts Earth's largest "restless" caldera and over 10,000 thermal features. The chemical compositions of rivers that drain thermal areas in the YPVF differ significantly from the compositions of rivers that drain non-thermal areas. There are large seasonal variations in river chemistry and solute flux, which increases with increasing water discharge. The river chemistry and discharge data collected periodically over an entire year allow us to constrain the annual solute fluxes and to distinguish between low-temperature weathering and hydrothermal flux components. The TDS flux from Yellowstone Caldera in water year 2007 was 93t/km2/year. Extensive magma degassing and hydrothermal interaction with rocks accounts for at least 82% of this TDS flux, 83% of the cation flux and 72% of the HCO3- flux. The low-temperature chemical weathering rate (17t/km2/year), calculated on the assumption that all the Cl- is of thermal origin, could include a component from low-temperature hydrolysis reactions induced by CO2 ascending from depth rather than by atmospheric CO2. Although this uncertainty remains, the calculated low-temperature weathering rate of the young rhyolitic rocks in the Yellowstone Caldera is comparable to the world average of large watersheds that drain also more soluble carbonates and evaporates but is slightly lower than calculated rates in other, less-silicic volcanic regions. Long-term average fluxes at

  10. Space Radar Image of Yellowstone Park, Wyoming

    NASA Technical Reports Server (NTRS)

    1994-01-01

    These two radar images show the majestic Yellowstone National Park, Wyoming, the oldest national park in the United States and home to the world's most spectacular geysers and hot springs. The region supports large populations of grizzly bears, elk and bison. In 1988, the park was burned by one of the most widespread fires to occur in the northern Rocky Mountains in the last 50 years. Surveys indicated that 793,880 acres of land burned. Of that, 41 percent was burned forest, with tree canopies totally consumed by the fire; 35 percent was a combination of unburned, scorched and blackened trees; 13 percent was surface burn under an unburned canopy; 6 percent was non-forest burn; and 5 percent was undifferentiated burn. Six years later, the burned areas are still clearly visible in these false-color radar images obtained by the Spaceborne Imaging Radar-C/X-band Synthetic Aperture Radar on board the space shuttle Endeavour. The image at the left was obtained using the L-band radar channel, horizontally received and vertically transmitted, on the shuttle's 39th orbit on October 2, 1994. The area shown is 45 kilometers by 71 kilometers (28 miles by 44 miles) in size and centered at 44.6 degrees north latitude, 110.7 degrees west longitude. North is toward the top of the image (to the right). Most trees in this area are lodge pole pines at different stages of fire succession. Yellowstone Lake appears as a large dark feature at the bottom of the scene. At right is a map of the forest crown, showing its biomass, or amount of vegetation, which includes foliage and branches. The map was created by inverting SIR-C data and using in situ estimates of crown biomass gathered by the Yellowstone National Biological Survey. The map is displayed on a color scale from blue (rivers and lakes with no biomass) to brown (non-forest areas with crown biomass of less than 4 tons per hectare) to light brown (areas of canopy burn with biomass of between 4 and 12 tons per hectare). Yellow

  11. Eukaryotic cell flattening

    NASA Astrophysics Data System (ADS)

    Bae, Albert; Westendorf, Christian; Erlenkamper, Christoph; Galland, Edouard; Franck, Carl; Bodenschatz, Eberhard; Beta, Carsten

    2010-03-01

    Eukaryotic cell flattening is valuable for improving microscopic observations, ranging from bright field to total internal reflection fluorescence microscopy. In this talk, we will discuss traditional overlay techniques, and more modern, microfluidic based flattening, which provides a greater level of control. We demonstrate these techniques on the social amoebae Dictyostelium discoideum, comparing the advantages and disadvantages of each method.

  12. Use of ASTER and MODIS thermal infrared data to quantify heat flow and hydrothermal change at Yellowstone National Park

    USGS Publications Warehouse

    Vaughan, R. Greg; Keszthelyi, Laszlo P.; Lowenstern, Jacob B.; Jaworowski, Cheryl; Heasler, Henry

    2012-01-01

    The overarching aim of this study was to use satellite thermal infrared (TIR) remote sensing to monitor geothermal activity within the Yellowstone geothermal area to meet the missions of both the U.S. Geological Survey and the Yellowstone National Park Geology Program. Specific goals were to: 1) address the challenges of monitoring the surface thermal characteristics of the > 10,000 spatially and temporally dynamic thermal features in the Park (including hot springs, pools, geysers, fumaroles, and mud pots) that are spread out over ~ 5000 km2, by using satellite TIR remote sensing tools (e.g., ASTER and MODIS), 2) to estimate the radiant geothermal heat flux (GHF) for Yellowstone's thermal areas, and 3) to identify normal, background thermal changes so that significant, abnormal changes can be recognized, should they ever occur (e.g., changes related to tectonic, hydrothermal, impending volcanic processes, or human activities, such as nearby geothermal development). ASTER TIR data (90-m pixels) were used to estimate the radiant GHF from all of Yellowstone's thermal features and update maps of thermal areas. MODIS TIR data (1-km pixels) were used to record background thermal radiance variations from March 2000 through December 2010 and establish thermal change detection limits. A lower limit for the radiant GHF estimated from ASTER TIR temperature data was established at ~ 2.0 GW, which is ~ 30–45% of the heat flux estimated through geochemical thermometry. Also, about 5 km2 of thermal areas was added to the geodatabase of mapped thermal areas. A decade-long time-series of MODIS TIR radiance data was dominated by seasonal cycles. A background subtraction technique was used in an attempt to isolate variations due to geothermal changes. Several statistically significant perturbations were noted in the time-series from Norris Geyser Basin, however many of these did not correspond to documented thermal disturbances. This study provides concrete examples of the

  13. Origins and evolution of viruses of eukaryotes: The ultimate modularity

    PubMed Central

    Koonin, Eugene V.; Dolja, Valerian V.; Krupovic, Mart

    2018-01-01

    Viruses and other selfish genetic elements are dominant entities in the biosphere, with respect to both physical abundance and genetic diversity. Various selfish elements parasitize on all cellular life forms. The relative abundances of different classes of viruses are dramatically different between prokaryotes and eukaryotes. In prokaryotes, the great majority of viruses possess double-stranded (ds) DNA genomes, with a substantial minority of single-stranded (ss) DNA viruses and only limited presence of RNA viruses. In contrast, in eukaryotes, RNA viruses account for the majority of the virome diversity although ssDNA and dsDNA viruses are common as well. Phylogenomic analysis yields tangible clues for the origins of major classes of eukaryotic viruses and in particular their likely roots in prokaryotes. Specifically, the ancestral genome of positive-strand RNA viruses of eukaryotes might have been assembled de novo from genes derived from prokaryotic retroelements and bacteria although a primordial origin of this class of viruses cannot be ruled out. Different groups of double-stranded RNA viruses derive either from dsRNA bacteriophages or from positive-strand RNA viruses. The eukaryotic ssDNA viruses apparently evolved via a fusion of genes from prokaryotic rolling circle-replicating plasmids and positive-strand RNA viruses. Different families of eukaryotic dsDNA viruses appear to have originated from specific groups of bacteriophages on at least two independent occasions. Polintons, the largest known eukaryotic transposons, predicted to also form virus particles, most likely, were the evolutionary intermediates between bacterial tectiviruses and several groups of eukaryotic dsDNA viruses including the proposed order “Megavirales” that unites diverse families of large and giant viruses. Strikingly, evolution of all classes of eukaryotic viruses appears to have involved fusion between structural and replicative gene modules derived from different sources

  14. Geologic studies of Yellowstone National Park imagery using an electronic image enhancement system

    NASA Technical Reports Server (NTRS)

    Smedes, H. W.

    1970-01-01

    The image enhancement system is described, as well as the kinds of enhancement attained. Results were obtained from various kinds of remote sensing imagery (mainly black and white multiband, color, color infrared, thermal infrared, and side-looking K-band radar) of parts of Yellowstone National Park. Possible additional fields of application of these techniques are considered.

  15. The climate adaptation programs and activities of the Yellowstone to Yukon Conservation Initiative

    Treesearch

    Wendy L. Francis

    2011-01-01

    The Yellowstone to Yukon Conservation Initiative (Y2Y) is an innovative transboundary effort to protect biodiversity and facilitate climate adaptation by linking large protected core areas through compatible land uses on matrix lands. The Y2Y organization acts as the keeper of the Y2Y vision and implements two interconnected programs - Science and Action, and Vision...

  16. Sexual predators, energy development, and conservation in greater Yellowstone.

    PubMed

    Berger, Joel; Beckmann, Jon P

    2010-06-01

    In the United States, as elsewhere, a growing debate pits national energy policy and homeland security against biological conservation. In rural communities the extraction of fossil fuels is often encouraged because of the employment opportunities it offers, although the concomitant itinerant workforce is often associated with increased wildlife poaching. We explored possible positive and negative factors associated with energy extraction in the Greater Yellowstone Ecosystem (GYE), an area known for its national parks, intact biological diversity, and some of the New World's longest terrestrial migrations. Specifically, we asked whether counties with different economies-recreation (ski), agrarian (ranching or farming), and energy extractive (petroleum)-differed in healthcare (gauged by the abundance of hospital beds) and in the frequency of sexual predators. The absolute and relative frequency of registered sex offenders grew approximately two to three times faster in areas reliant on energy extraction. Healthcare among counties did not differ. The strong conflation of community dishevel, as reflected by in-migrant sexual predators, and ecological decay in Greater Yellowstone is consistent with patterns seen in similar systems from Ecuador to northern Canada, where social and environmental disarray exist around energy boomtowns. In our case, that groups (albeit with different aims) mobilized campaigns to help maintain the quality of rural livelihoods by protecting open space is a positive sign that conservation can matter, especially in the face of rampant and poorly executed energy extraction projects. Our findings further suggest that the public and industry need stronger regulatory action to instill greater vigilance when and where social factors and land conversion impact biological systems.

  17. The Yellowstone ‘hot spot’ track results from migrating Basin Range extension

    USGS Publications Warehouse

    Foulger, Gillian R.; Christiansen, Robert L.; Anderson, Don L.; Foulger, Gillian R.; Lustrino, Michele; King, Scott D.

    2015-01-01

    Whether the volcanism of the Columbia River Plateau, eastern Snake River Plain, and Yellowstone (western U.S.) is related to a mantle plume or to plate tectonic processes is a long-standing controversy. There are many geological mismatches with the basic plume model as well as logical flaws, such as citing data postulated to require a deep-mantle origin in support of an “upper-mantle plume” model. USArray has recently yielded abundant new seismological results, but despite this, seismic analyses have still not resolved the disparity of opinion. This suggests that seismology may be unable to resolve the plume question for Yellowstone, and perhaps elsewhere. USArray data have inspired many new models that relate western U.S. volcanism to shallow mantle convection associated with subduction zone processes. Many of these models assume that the principal requirement for surface volcanism is melt in the mantle and that the lithosphere is essentially passive. In this paper we propose a pure plate model in which melt is commonplace in the mantle, and its inherent buoyancy is not what causes surface eruptions. Instead, it is extension of the lithosphere that permits melt to escape to the surface and eruptions to occur—the mere presence of underlying melt is not a sufficient condition. The time-progressive chain of rhyolitic calderas in the eastern Snake River Plain–Yellowstone zone that has formed since basin-range extension began at ca. 17 Ma results from laterally migrating lithospheric extension and thinning that has permitted basaltic magma to rise from the upper mantle and melt the lower crust. We propose that this migration formed part of the systematic eastward migration of the axis of most intense basin-range extension. The bimodal rhyolite-basalt volcanism followed migration of the locus of most rapid extension, not vice versa. This model does not depend on seismology to test it but instead on surface geological observations.

  18. Thermal controls of Yellowstone cutthroat trout and invasive fishes under climate change

    USGS Publications Warehouse

    Al-Chokhachy, Robert K.; Alder, Jay R.; Hostetler, Steven W.; Gresswell, Robert E.; Shepard, Bradley

    2013-01-01

    We combine large observed data sets and dynamically downscaled climate data to explore historic and future (2050–2069) stream temperature changes over the topographically diverse Greater Yellowstone Ecosystem (elevation range = 824–4017 m). We link future stream temperatures with fish growth models to investigate how changing thermal regimes could influence the future distribution and persistence of native Yellowstone cutthroat trout (YCT) and competing invasive species. We find that stream temperatures during the recent decade (2000–2009) surpass the anomalously warm period of the 1930s. Climate simulations indicate air temperatures will warm by 1 °C to >3 °C over the Greater Yellowstone by mid-21st century, resulting in concomitant increases in 2050–2069 peak stream temperatures and protracted periods of warming from May to September (MJJAS). Projected changes in thermal regimes during the MJJAS growing season modify the trajectories of daily growth rates at all elevations with pronounced growth during early and late summer. For high-elevation populations, we find considerable increases in fish body mass attributable both to warming of cold-water temperatures and to extended growing seasons. During peak July to August warming, mid-21st century temperatures will cause periods of increased thermal stress, rendering some low-elevation streams less suitable for YCT. The majority (80%) of sites currently inhabited by YCT, however, display minimal loss (<10%) or positive changes in total body mass by midcentury; we attribute this response to the fact that many low-elevation populations of YCT have already been extirpated by historical changes in land use and invasions of non-native species. Our results further suggest that benefits to YCT populations due to warmer stream temperatures at currently cold sites could be offset by the interspecific effects of corresponding growth of sympatric, non-native species, underscoring the importance of developing

  19. Volcano and Earthquake Monitoring Plan for the Yellowstone Volcano Observatory, 2006-2015

    USGS Publications Warehouse

    ,

    2006-01-01

    To provide Yellowstone National Park (YNP) and its surrounding communities with a modern, comprehensive system for volcano and earthquake monitoring, the Yellowstone Volcano Observatory (YVO) has developed a monitoring plan for the period 2006-2015. Such a plan is needed so that YVO can provide timely information during seismic, volcanic, and hydrothermal crises and can anticipate hazardous events before they occur. The monitoring network will also provide high-quality data for scientific study and interpretation of one of the largest active volcanic systems in the world. Among the needs of the observatory are to upgrade its seismograph network to modern standards and to add five new seismograph stations in areas of the park that currently lack adequate station density. In cooperation with the National Science Foundation (NSF) and its Plate Boundary Observatory Program (PBO), YVO seeks to install five borehole strainmeters and two tiltmeters to measure crustal movements. The boreholes would be located in developed areas close to existing infrastructure and away from sensitive geothermal features. In conjunction with the park's geothermal monitoring program, installation of new stream gages, and gas-measuring instruments will allow YVO to compare geophysical phenomena, such as earthquakes and ground motions, to hydrothermal events, such as anomalous water and gas discharge. In addition, YVO seeks to characterize the behavior of geyser basins, both to detect any precursors to hydrothermal explosions and to monitor earthquakes related to fluid movements that are difficult to detect with the current monitoring system. Finally, a monitoring network consists not solely of instruments, but requires also a secure system for real-time transmission of data. The current telemetry system is vulnerable to failures that could jeopardize data transmission out of Yellowstone. Future advances in monitoring technologies must be accompanied by improvements in the infrastructure for

  20. Contrasting past and current numbers of bears visiting Yellowstone cutthroat trout streams

    USGS Publications Warehouse

    Haroldson, Mark A.; Schwartz, Charles C.; Teisberg, Justin E.; Gunther, Kerry A.; Fortin, Jennifer K.; Robbins, Charles T.

    2014-01-01

    Spawning cutthroat trout (Oncorhynchus clarkii bouvieri) were historically abundant within tributary streams of Yellowstone Lake within Yellowstone National Park and were a highly digestible source of energy and protein for Yellowstone’s grizzly bears (Ursus arctos) and black bears (U. americanus). The cutthroat trout population has subsequently declined since the introduction of non-native lake trout (Salvelinus namaycush), and in response to effects of drought and whirling disease (Myxobolus cerebralis). The trout population, duration of spawning runs, and indices of bear use of spawning streams had declined in some regions of the lake by 1997–2000. We initiated a 3-year study in 2007 to assess whether numbers of spawning fish, black bears, and grizzly bears within and alongside stream corridors had changed since 1997– 2000. We estimated numbers of grizzly bears and black bears by first compiling encounter histories of individual bears visiting 48 hair-snag sites along 35 historically fished streams.We analyzed DNA encounter histories with Pradel-recruitment and Jolly-Seber (POPAN) capture-mark-recapture models. When compared to 1997–2000, the current number of spawning cutthroat trout per stream and the number of streams with cutthroat trout has decreased. We estimated that 48 (95% CI¼42–56) male and 23 (95% CI¼21–27) female grizzly bears visited the historically fished tributary streams during our study. In any 1- year, 46 to 59 independent grizzly bears (8–10% of estimated Greater Yellowstone Ecosystem population) visited these streams. When compared with estimates from the 1997 to 2000 study and adjusted for equal effort, the number of grizzly bears using the stream corridors decreased by 63%. Additionally, the number of black bears decreased between 64% and 84%. We also document an increased proportion of bears of both species visiting front-country (i.e., near human development) streams. With the recovery of cutthroat trout, we suggest bears

  1. Endosymbiotic gene transfer from prokaryotic pangenomes: Inherited chimerism in eukaryotes.

    PubMed

    Ku, Chuan; Nelson-Sathi, Shijulal; Roettger, Mayo; Garg, Sriram; Hazkani-Covo, Einat; Martin, William F

    2015-08-18

    Endosymbiotic theory in eukaryotic-cell evolution rests upon a foundation of three cornerstone partners--the plastid (a cyanobacterium), the mitochondrion (a proteobacterium), and its host (an archaeon)--and carries a corollary that, over time, the majority of genes once present in the organelle genomes were relinquished to the chromosomes of the host (endosymbiotic gene transfer). However, notwithstanding eukaryote-specific gene inventions, single-gene phylogenies have never traced eukaryotic genes to three single prokaryotic sources, an issue that hinges crucially upon factors influencing phylogenetic inference. In the age of genomes, single-gene trees, once used to test the predictions of endosymbiotic theory, now spawn new theories that stand to eventually replace endosymbiotic theory with descriptive, gene tree-based variants featuring supernumerary symbionts: prokaryotic partners distinct from the cornerstone trio and whose existence is inferred solely from single-gene trees. We reason that the endosymbiotic ancestors of mitochondria and chloroplasts brought into the eukaryotic--and plant and algal--lineage a genome-sized sample of genes from the proteobacterial and cyanobacterial pangenomes of their respective day and that, even if molecular phylogeny were artifact-free, sampling prokaryotic pangenomes through endosymbiotic gene transfer would lead to inherited chimerism. Recombination in prokaryotes (transduction, conjugation, transformation) differs from recombination in eukaryotes (sex). Prokaryotic recombination leads to pangenomes, and eukaryotic recombination leads to vertical inheritance. Viewed from the perspective of endosymbiotic theory, the critical transition at the eukaryote origin that allowed escape from Muller's ratchet--the origin of eukaryotic recombination, or sex--might have required surprisingly little evolutionary innovation.

  2. Eukaryotic-Like Virus Budding in Archaea

    PubMed Central

    Quemin, Emmanuelle R. J.; Chlanda, Petr; Sachse, Martin; Forterre, Patrick

    2016-01-01

    ABSTRACT Similar to many eukaryotic viruses (and unlike bacteriophages), viruses infecting archaea are often encased in lipid-containing envelopes. However, the mechanisms of their morphogenesis and egress remain unexplored. Here, we used dual-axis electron tomography (ET) to characterize the morphogenesis of Sulfolobus spindle-shaped virus 1 (SSV1), the prototype of the family Fuselloviridae and representative of the most abundant archaea-specific group of viruses. Our results show that SSV1 assembly and egress are concomitant and occur at the cellular cytoplasmic membrane via a process highly reminiscent of the budding of enveloped viruses that infect eukaryotes. The viral nucleoprotein complexes are extruded in the form of previously unknown rod-shaped intermediate structures which have an envelope continuous with the host membrane. Further maturation into characteristic spindle-shaped virions takes place while virions remain attached to the cell surface. Our data also revealed the formation of constricted ring-like structures which resemble the budding necks observed prior to the ESCRT machinery-mediated membrane scission during egress of various enveloped viruses of eukaryotes. Collectively, we provide evidence that archaeal spindle-shaped viruses contain a lipid envelope acquired upon budding of the viral nucleoprotein complex through the host cytoplasmic membrane. The proposed model bears a clear resemblance to the egress strategy employed by enveloped eukaryotic viruses and raises important questions as to how the archaeal single-layered membrane composed of tetraether lipids can undergo scission. PMID:27624130

  3. Metatranscriptomics of Soil Eukaryotic Communities.

    PubMed

    Yadav, Rajiv K; Bragalini, Claudia; Fraissinet-Tachet, Laurence; Marmeisse, Roland; Luis, Patricia

    2016-01-01

    Functions expressed by eukaryotic organisms in soil can be specifically studied by analyzing the pool of eukaryotic-specific polyadenylated mRNA directly extracted from environmental samples. In this chapter, we describe two alternative protocols for the extraction of high-quality RNA from soil samples. Total soil RNA or mRNA can be converted to cDNA for direct high-throughput sequencing. Polyadenylated mRNA-derived full-length cDNAs can also be cloned in expression plasmid vectors to constitute soil cDNA libraries, which can be subsequently screened for functional gene categories. Alternatively, the diversity of specific gene families can also be explored following cDNA sequence capture using exploratory oligonucleotide probes.

  4. Forecasts of 21st Century Snowpack and Implications for Snowmobile and Snowcoach Use in Yellowstone National Park

    PubMed Central

    Tercek, Michael; Rodman, Ann

    2016-01-01

    Climate models project a general decline in western US snowpack throughout the 21st century, but long-term, spatially fine-grained, management-relevant projections of snowpack are not available for Yellowstone National Park. We focus on the implications that future snow declines may have for oversnow vehicle (snowmobile and snowcoach) use because oversnow tourism is critical to the local economy and has been a contentious issue in the park for more than 30 years. Using temperature-indexed snow melt and accumulation equations with temperature and precipitation data from downscaled global climate models, we forecast the number of days that will be suitable for oversnow travel on each Yellowstone road segment during the mid- and late-21st century. The west entrance road was forecast to be the least suitable for oversnow use in the future while the south entrance road was forecast to remain at near historical levels of driveability. The greatest snow losses were forecast for the west entrance road where as little as 29% of the December–March oversnow season was forecast to be driveable by late century. The climatic conditions that allow oversnow vehicle use in Yellowstone are forecast by our methods to deteriorate significantly in the future. At some point it may be prudent to consider plowing the roads that experience the greatest snow losses. PMID:27467778

  5. The Geologic Story of Yellowstone National Park

    USGS Publications Warehouse

    Keefer, William Richard

    1971-01-01

    In the aftermath of the Civil War, the United States expanded the exploration of her western frontiers to gain a measure of the vast lands and natural resources in the region now occupied by our Rocky Mountain States. As part of this effort, the Geological and Geographical Survey of the Territories was organized within the Department of the Interior, and staffed by a group of hardy, pioneering scientists under the leadership of geologist F. V. Hayden. During the summer of 1871, these men, accompanied by photographer William H. Jackson and artist Thomas Moran, made a reconnaissance geological study of the legendary and mysterious 'Yellowstone Wonderland' in remote northwestern Wyoming Territory. The scientific reports and illustrations prepared by Hayden and his colleagues, supplementing the startling accounts that had been published by members of the famous Washburn-Doane Expedition a year earlier, erased all doubts that this unique land was eminently worthy of being set aside 'for the benefit and enjoyment of the people.' By Act of Congress on March 1, 1872, our first National Park was established. During the past century, 50 million people have toured Yellowstone National Park, marveling at its never-ending display of natural wonders. No doubt many have paused to wonder about the origin of these unusual and complex geological features - a question, needless to say, that has intrigued and challenged scientists from the very first days of the Hayden Survey. During the past decade a group of U. S. Geological Survey scientists, in cooperation with the National Park Service and aided by the interest of the National Aeronautics and Space Administration in remote sensing of the geologic phenomena, has been probing the depths and farthest corners of the Park seeking more of the answers. Some of the results of this work, and those of earlier studies, are described in this book to provide a better understanding and enjoyment of this great National Park.

  6. Archaeal "dark matter" and the origin of eukaryotes.

    PubMed

    Williams, Tom A; Embley, T Martin

    2014-03-01

    Current hypotheses about the history of cellular life are mainly based on analyses of cultivated organisms, but these represent only a small fraction of extant biodiversity. The sequencing of new environmental lineages therefore provides an opportunity to test, revise, or reject existing ideas about the tree of life and the origin of eukaryotes. According to the textbook three domains hypothesis, the eukaryotes emerge as the sister group to a monophyletic Archaea. However, recent analyses incorporating better phylogenetic models and an improved sampling of the archaeal domain have generally supported the competing eocyte hypothesis, in which core genes of eukaryotic cells originated from within the Archaea, with important implications for eukaryogenesis. Given this trend, it was surprising that a recent analysis incorporating new genomes from uncultivated Archaea recovered a strongly supported three domains tree. Here, we show that this result was due in part to the use of a poorly fitting phylogenetic model and also to the inclusion by an automated pipeline of genes of putative bacterial origin rather than nucleocytosolic versions for some of the eukaryotes analyzed. When these issues were resolved, analyses including the new archaeal lineages placed core eukaryotic genes within the Archaea. These results are consistent with a number of recent studies in which improved archaeal sampling and better phylogenetic models agree in supporting the eocyte tree over the three domains hypothesis.

  7. Months between rejuvenation and volcanic eruption at Yellowstone caldera, Wyoming

    USGS Publications Warehouse

    Till, Christy B.; Vazquez, Jorge A.; Boyce, Jeremy W

    2015-01-01

    Rejuvenation of previously intruded silicic magma is an important process leading to effusive rhyolite, which is the most common product of volcanism at calderas with protracted histories of eruption and unrest such as Yellowstone, Long Valley, and Valles, USA. Although orders of magnitude smaller in volume than rare caldera-forming super-eruptions, these relatively frequent effusions of rhyolite are comparable to the largest eruptions of the 20th century and pose a considerable volcanic hazard. However, the physical pathway from rejuvenation to eruption of silicic magma is unclear particularly because the time between reheating of a subvolcanic intrusion and eruption is poorly quantified. This study uses geospeedometry of trace element profiles with nanometer resolution in sanidine crystals to reveal that Yellowstone’s most recent volcanic cycle began when remobilization of a near- or sub-solidus silicic magma occurred less than 10 months prior to eruption, following a 220,000 year period of volcanic repose. Our results reveal a geologically rapid timescale for rejuvenation and effusion of ~3 km3 of high-silica rhyolite lava even after protracted cooling of the subvolcanic system, which is consistent with recent physical modeling that predict a timescale of several years or less. Future renewal of rhyolitic volcanism at Yellowstone is likely to require an energetic intrusion of mafic or silicic magma into the shallow subvolcanic reservoir and could rapidly generate an eruptible rhyolite on timescales similar to those documented here.

  8. What is “natural”? : Yellowstone elk population - A case study

    USGS Publications Warehouse

    Keigley, R.B.; Wagner, Frederic H.

    2000-01-01

    Ecology analyzes the structure and function of ecosystems at all points along the continuum of human disturbance, from so-called pristine forests to urban backyards. Undisturbed systems provide reference points at one end of the spectrum, and nature reserves and parks are highly valued because they can provide unique examples of such ecosystems. Unfortunately the concept of “natural” or pristine is not that easy to define. Indeed, although ecologists have considered pre-Columbian, western-hemisphere ecosystems to have been largely unaltered by human action, and have termed their state “natural” or “pristine,” evidence from archaeology challenges this view. U.S. and Canadian national parks are charged with preserving the “natural,” and thus need to be able to understand and manage for the “natural.” A pivotal “natural” question in Yellowstone National Park management is the size of the northern-range, wintering elk population at Park establishment in 1872, argued both to have been small and large. Integrating and quantifying several sources of evidence provides a consistent picture of a low population (ca. 5,000–6,000), largely migrating out of the northern range in winter, with little vegetation impact. If we accept this conclusion about what is natural for the Yellowstone ecosystem, then it dramatically alters how we view management alternatives for the Park, which currently supports a northern wintering herd of up to ˜ 25,000 elk.

  9. Attributes of Yellowstone cutthroat trout redds in a tributary of the Snake River, Idaho

    Treesearch

    Russell F. Thurow; John G. King

    1994-01-01

    We characterized spawning sites of Yellowstone cutthroat trout Oncorhynchus clarki bouvieri, described the microhabitat of completed redds, and tested the influence of habitat conditions on the morphology of completed redds in Pine Creek, Idaho. Cutthroat trout spawned in June as flows subsided after peak stream discharge. During spawning, minimum and maximum water...

  10. Anaerobic energy metabolism in unicellular photosynthetic eukaryotes.

    PubMed

    Atteia, Ariane; van Lis, Robert; Tielens, Aloysius G M; Martin, William F

    2013-02-01

    Anaerobic metabolic pathways allow unicellular organisms to tolerate or colonize anoxic environments. Over the past ten years, genome sequencing projects have brought a new light on the extent of anaerobic metabolism in eukaryotes. A surprising development has been that free-living unicellular algae capable of photoautotrophic lifestyle are, in terms of their enzymatic repertoire, among the best equipped eukaryotes known when it comes to anaerobic energy metabolism. Some of these algae are marine organisms, common in the oceans, others are more typically soil inhabitants. All these species are important from the ecological (O(2)/CO(2) budget), biotechnological, and evolutionary perspectives. In the unicellular algae surveyed here, mixed-acid type fermentations are widespread while anaerobic respiration, which is more typical of eukaryotic heterotrophs, appears to be rare. The presence of a core anaerobic metabolism among the algae provides insights into its evolutionary origin, which traces to the eukaryote common ancestor. The predicted fermentative enzymes often exhibit an amino acid extension at the N-terminus, suggesting that these proteins might be compartmentalized in the cell, likely in the chloroplast or the mitochondrion. The green algae Chlamydomonas reinhardtii and Chlorella NC64 have the most extended set of fermentative enzymes reported so far. Among the eukaryotes with secondary plastids, the diatom Thalassiosira pseudonana has the most pronounced anaerobic capabilities as yet. From the standpoints of genomic, transcriptomic, and biochemical studies, anaerobic energy metabolism in C. reinhardtii remains the best characterized among photosynthetic protists. This article is part of a Special Issue entitled: The evolutionary aspects of bioenergetic systems. Copyright © 2012 Elsevier B.V. All rights reserved.

  11. 77 FR 74027 - Winter Use Plan, Final Environmental Impact Statement Amended Record of Decision, Yellowstone...

    Federal Register 2010, 2011, 2012, 2013, 2014

    2012-12-12

    ..., Yellowstone National Park. SUMMARY: Pursuant to Sec. 102(2)(C) of the National Environmental Policy Act of... Wyoming. On December 3, 2012, the Regional Director, Intermountain Region, approved the Amended Record of... online at http://parkplanning.nps.gov/yell . Dated: December 2, 2012. John Wessels, Regional Director...

  12. 76 FR 68503 - Winter Use Plan, Final Environmental Impact Statement, Yellowstone National Park, Idaho, Montana...

    Federal Register 2010, 2011, 2012, 2013, 2014

    2011-11-04

    ... to 318 commercially guided, best available technology snowmobiles and 78 commercially guided... available technology snowmobiles and 78 commercially guided snowcoaches would be allowed in the park per day... and a detailed history of winter use in Yellowstone, is available at http://www.nps.gov/yell/planvisit...

  13. Aspen overstory recruitment in northern Yellowstone National Park during the last 200 years

    Treesearch

    Eric J. Larsen; William J. Ripple

    2001-01-01

    Using a monograph provided by Warren (1926) and two sets of aspen increment cores collected in 1997 and 1998, we analyzed aspen overstory recruitment in Yellowstone National Park (YNP) over the past 200 years. We found that successful aspen overstory recruitment occurred on the northern range of YNP from the middle to late 1700s until the 1920s, after which it...

  14. Transferred interbacterial antagonism genes augment eukaryotic innate immune function.

    PubMed

    Chou, Seemay; Daugherty, Matthew D; Peterson, S Brook; Biboy, Jacob; Yang, Youyun; Jutras, Brandon L; Fritz-Laylin, Lillian K; Ferrin, Michael A; Harding, Brittany N; Jacobs-Wagner, Christine; Yang, X Frank; Vollmer, Waldemar; Malik, Harmit S; Mougous, Joseph D

    2015-02-05

    Horizontal gene transfer allows organisms to rapidly acquire adaptive traits. Although documented instances of horizontal gene transfer from bacteria to eukaryotes remain rare, bacteria represent a rich source of new functions potentially available for co-option. One benefit that genes of bacterial origin could provide to eukaryotes is the capacity to produce antibacterials, which have evolved in prokaryotes as the result of eons of interbacterial competition. The type VI secretion amidase effector (Tae) proteins are potent bacteriocidal enzymes that degrade the cell wall when delivered into competing bacterial cells by the type VI secretion system. Here we show that tae genes have been transferred to eukaryotes on at least six occasions, and that the resulting domesticated amidase effector (dae) genes have been preserved for hundreds of millions of years through purifying selection. We show that the dae genes acquired eukaryotic secretion signals, are expressed within recipient organisms, and encode active antibacterial toxins that possess substrate specificity matching extant Tae proteins of the same lineage. Finally, we show that a dae gene in the deer tick Ixodes scapularis limits proliferation of Borrelia burgdorferi, the aetiologic agent of Lyme disease. Our work demonstrates that a family of horizontally acquired toxins honed to mediate interbacterial antagonism confers previously undescribed antibacterial capacity to eukaryotes. We speculate that the selective pressure imposed by competition between bacteria has produced a reservoir of genes encoding diverse antimicrobial functions that are tailored for co-option by eukaryotic innate immune systems.

  15. Insights into the Quaternary tectonics of the Yellowstone hotspot from a terrace record along the Hoback and Snake rivers.

    NASA Astrophysics Data System (ADS)

    Bufe, A.; Pederson, J. L.; Tuzlak, D.

    2016-12-01

    One of Earth's largest active supervolcanos and one of the most dynamically deforming areas in North America is located above the Yellowstone mantle plume. A pulse of dynamically supported uplift and extension of the upper crust has been moving northeastward as the North American plate migrated across the hotspot. This pules of uplift is complicated by subsidence of the Snake River Plain in the wake of the plume, due to a combination of crustal loading by intrusive and extrusive magmas, and by densification of igneous and volcanic rocks. Understanding the geodynamics as well as the seismic hazard of this region relies on studying the distribution and timing of active uplift, subsidence, and faulting across timescales. Here, we present preliminary results from a study of river terraces along the Hoback and upper Snake rivers that flow from the flanks of the Yellowstone plateau into the subsiding Snake River Plain. Combining terrace surveys with optically stimulated luminescence ages, we calculate incision rates of 0.1 - 0.3 mm/y along the deeply incised canyons of the Hoback and Snake rivers upstream of Alpine, WY. Rather than steadily decreasing away from the Yellowstone plume-head, the pattern of incision rates seems to be mostly affected by the distribution of normal faults - including the Alpine section of the Grand Valley Fault that has been reported to be inactive throughout the Quaternary. Downstream of Alpine and approaching the Snake River Plain, late Quaternary fill-terraces show much slower incision rates which might be consistent with a broad flexure of the region toward the subsiding Snake River Plain. Future studies of the Snake and Hoback rivers and additional streams around the Yellowstone hotspot will further illuminate the pattern of late Quaternary uplift in the region.

  16. A search for extraterrestrial eukaryotes: physical and paleontological aspects.

    PubMed

    Chela-Flores, J

    1998-10-01

    Physical and biochemical aspects of a proposed search for extraterrestrial eukaryotes (SETE) are considered. Such a program should approach the distinction between a primitive eukaryote and an archaebacteria. The emphasis on gene silencing suggests a possible assay suitable for a robotic investigation of eukaryoticity, so as to be able to decide whether the first steps towards eukaryogenesis have been taken in an extraterrestrial planet, or satellite. The experiment would consist of searching for cellular division and the systematic related delay in replication of heterochromatic chromosome segments. It should be noticed that the direct search for a membrane-bounded set of chromosomes does not necessarily determine eukaryotic identity, as there are prokaryotes that have membrane-bounded nucleoids. A closer look at the protein fraction of chromatin (mainly histones) does not help either, as there are some eukaryotes that may lack histones; there are also some bacteria as well as archaebacteria with histone-like proteins in their nucleoids. Comments on the recent suggestion of possible environments for a SETE program are discussed: the deep crust of Mars, and the Jovian satellite Europa, provided the existence of an ocean under its ice-covered surface is confirmed by the current Galileo mission.

  17. Structure and Mechanism of a Eukaryotic FMN Adenylyltransferase

    DOE Office of Scientific and Technical Information (OSTI.GOV)

    Huerta, Carlos; Borek, Dominika; Machius, Mischa

    2009-12-01

    Flavin mononucleotide adenylyltransferase (FMNAT) catalyzes the formation of the essential flavocoenzyme flavin adenine dinucleotide (FAD) and plays an important role in flavocoenzyme homeostasis regulation. By sequence comparison, bacterial and eukaryotic FMNAT enzymes belong to two different protein superfamilies and apparently utilize different sets of active-site residues to accomplish the same chemistry. Here we report the first structural characterization of a eukaryotic FMNAT from the pathogenic yeast Candida glabrata. Four crystal structures of C. glabrata FMNAT in different complexed forms were determined at 1.20-1.95 A resolutions, capturing the enzyme active-site states prior to and after catalysis. These structures reveal a novelmore » flavin-binding mode and a unique enzyme-bound FAD conformation. Comparison of the bacterial and eukaryotic FMNATs provides a structural basis for understanding the convergent evolution of the same FMNAT activity from different protein ancestors. Structure-based investigation of the kinetic properties of FMNAT should offer insights into the regulatory mechanisms of FAD homeostasis by FMNAT in eukaryotic organisms.« less

  18. Bifurcation of the Yellowstone plume driven by subduction-induced mantle flow

    NASA Astrophysics Data System (ADS)

    Kincaid, C.; Druken, K. A.; Griffiths, R. W.; Stegman, D. R.

    2013-05-01

    The causes of volcanism in the northwestern United States over the past 20 million years are strongly contested. Three drivers have been proposed: melting associated with plate subduction; tectonic extension and magmatism resulting from rollback of a subducting slab; or the Yellowstone mantle plume. Observations of the opposing age progression of two neighbouring volcanic chains--the Snake River Plain and High Lava Plains--are often used to argue against a plume origin for the volcanism. Plumes are likely to occur near subduction zones, yet the influence of subduction on the surface expression of mantle plumes is poorly understood. Here we use experiments with a laboratory model to show that the patterns of volcanism in the northwestern United States can be explained by a plume upwelling through mantle that circulates in the wedge beneath a subduction zone. We find that the buoyant plume may be stalled, deformed and partially torn apart by mantle flow induced by the subducting plate. Using plausible model parameters, bifurcation of the plume can reproduce the primary volcanic features observed in the northwestern United States, in particular the opposite progression of two volcanic chains. Our results support the presence of the Yellowstone plume in the northwestern United States, and also highlight the power of plume-subduction interactions to modify surface geology at convergent plate margins.

  19. David and Goliath: chemical perturbation of eukaryotes by bacteria.

    PubMed

    Ho, Louis K; Nodwell, Justin R

    2016-03-01

    Environmental microbes produce biologically active small molecules that have been mined extensively as antibiotics and a smaller number of drugs that act on eukaryotic cells. It is known that there are additional bioactives to be discovered from this source. While the discovery of new antibiotics is challenged by the frequent discovery of known compounds, we contend that the eukaryote-active compounds may be less saturated. Indeed, despite there being far fewer eukaryotic-active natural products these molecules interact with a far richer diversity of molecular and cellular targets.

  20. Isotopic and chemical evidence concerning the genesis and contamination of basaltic and rhyolitic magma beneath the Yellowstone Plateau Volcanic Field

    USGS Publications Warehouse

    Hildreth, W.; Halliday, A.N.; Christiansen, R.L.

    1991-01-01

    Since 2.2 Ma, the Yellowstone Plateau Volcanic Field has produced ~6000 km3 of rhyolite tuffs and lavas in >60 separate eruptions, as well as ~100 km3 of tholeiitic basalt from >50 vents peripheral to the silicic focus. Intermediate eruptive products are absent. Early postcollapse rhyolites show large shifts in Nd, Sr, Pb, and O isotopic composition caused by assimilation of roof rocks and hydrothermal brines during collapse and resurgence. Younger intracaldera rhyolite lavas record partial isotopic recovery toward precaldera ratios. Thirteen extracaldera rhyolites show none of these effects and have sources independent of the subcaldera magma system. Contributions from the Archaean crust have extreme values and wide ranges of Nd-, Sr, and Pb-isotope ratios, but Yellowstone rhyolites have moderate values and limited ranges. This requires their deep-crustal sources to have been pervasively hybridized by distributed intrusion of Cenozoic basalt, most of which was probably contemporaneous with the Pliocene and Quaternary volcanism. Most Yellowstone basalts had undergone cryptic clinopyroxene fractionation in the lower crust or crust-mantle transition zone and, having also ascended through or adjacent to crustal zones of silicic-magma generation, most underwent some crustal contamination. -from Authors

  1. Estimating occupancy in large landscapes: Evaluation of amphibian monitoring in the Greater Yellowstone Ecosystem

    Treesearch

    William R. Gould; Debra A. Patla; Rob Daley; Paul Stephen Corn; Blake R. Hossack; Robert Bennetts; Charles R. Peterson

    2012-01-01

    Monitoring of natural resources is crucial to ecosystem conservation, and yet it can pose many challenges. Annual surveys for amphibian breeding occupancy were conducted in Yellowstone and Grand Teton National Parks over a 4-year period (2006-2009) at two scales: catchments (portions of watersheds) and individual wetland sites. Catchments were selected in a stratified...

  2. Reproduction, symbiosis, and the eukaryotic cell

    PubMed Central

    Godfrey-Smith, Peter

    2015-01-01

    This paper develops a conceptual framework for addressing questions about reproduction, individuality, and the units of selection in symbiotic associations, with special attention to the origin of the eukaryotic cell. Three kinds of reproduction are distinguished, and a possible evolutionary sequence giving rise to a mitochondrion-containing eukaryotic cell from an endosymbiotic partnership is analyzed as a series of transitions between each of the three forms of reproduction. The sequence of changes seen in this “egalitarian” evolutionary transition is compared with those that apply in “fraternal” transitions, such as the evolution of multicellularity in animals. PMID:26286983

  3. Eukaryotic DNA polymerase ζ

    PubMed Central

    Makarova, Alena V.; Burgers, Peter M.

    2015-01-01

    This review focuses on eukaryotic DNA polymerase ζ (Pol ζ), the enzyme responsible for the bulk of mutagenesis in eukaryotic cells in response to DNA damage. Pol ζ is also responsible for a large portion of mutagenesis during normal cell growth, in response to spontaneous damage or to certain DNA structures and other blocks that stall DNA replication forks. Novel insights in mutagenesis have been derived from recent advances in the elucidation of the subunit structure of Pol ζ. The lagging strand DNA polymerase δ shares the small Pol31 and Pol32 subunits with the Rev3-Rev7 core assembly giving a four subunit Pol ζ complex that is the active form in mutagenesis. Furthermore, Pol ζ forms essential interactions with the mutasome assembly factor Rev1 and with proliferating cell nuclear antigen (PCNA). These interactions are modulated by posttranslational modifications such as ubiquitination and phosphorylation that enhance translesion synthesis (TLS) and mutagenesis. PMID:25737057

  4. Horizontal transfer of a eukaryotic plastid-targeted protein gene to cyanobacteria

    PubMed Central

    Rogers, Matthew B; Patron, Nicola J; Keeling, Patrick J

    2007-01-01

    Background Horizontal or lateral transfer of genetic material between distantly related prokaryotes has been shown to play a major role in the evolution of bacterial and archaeal genomes, but exchange of genes between prokaryotes and eukaryotes is not as well understood. In particular, gene flow from eukaryotes to prokaryotes is rarely documented with strong support, which is unusual since prokaryotic genomes appear to readily accept foreign genes. Results Here, we show that abundant marine cyanobacteria in the related genera Synechococcus and Prochlorococcus acquired a key Calvin cycle/glycolytic enzyme from a eukaryote. Two non-homologous forms of fructose bisphosphate aldolase (FBA) are characteristic of eukaryotes and prokaryotes respectively. However, a eukaryotic gene has been inserted immediately upstream of the ancestral prokaryotic gene in several strains (ecotypes) of Synechococcus and Prochlorococcus. In one lineage this new gene has replaced the ancestral gene altogether. The eukaryotic gene is most closely related to the plastid-targeted FBA from red algae. This eukaryotic-type FBA once replaced the plastid/cyanobacterial type in photosynthetic eukaryotes, hinting at a possible functional advantage in Calvin cycle reactions. The strains that now possess this eukaryotic FBA are scattered across the tree of Synechococcus and Prochlorococcus, perhaps because the gene has been transferred multiple times among cyanobacteria, or more likely because it has been selectively retained only in certain lineages. Conclusion A gene for plastid-targeted FBA has been transferred from red algae to cyanobacteria, where it has inserted itself beside its non-homologous, functional analogue. Its current distribution in Prochlorococcus and Synechococcus is punctate, suggesting a complex history since its introduction to this group. PMID:17584924

  5. Effects of metal mining and milling on boundary waters of Yellowstone National Park, USA

    USGS Publications Warehouse

    Nimmo, D.R.; Willox, M.J.; Lafrancois, T.D.; Chapman, P.L.; Brinkman, S.F.; Greene, J.C.

    1998-01-01

    Aquatic resources in Soda Butte Creek within Yellowstone National Park, USA, continue to be threatened by heavy metals from historical mining and milling activities that occurred upstream of the park's boundary. This includes the residue of gold, silver, and copper ore mining and processing in the early 1900s near Cooke City, Montana, just downstream of the creek's headwaters. Toxicity tests, using surrogate test species, and analyses of metals in water, sediments, and macroinvertebrate tissue were conducted from 1993 to 1995. Chronic toxicity to test species was greater in the spring than the fall and metal concentrations were elevated in the spring with copper exceeding water quality criteria in 1995. Tests with amphipods using pore water and whole sediment from the creek and copper concentrations in the tissue of macroinvertebrates and fish also suggest that copper is the metal of concern in the watershed. In order to understand current conditions in Soda Butte Creek, heavy metals, especially copper, must be considered important factors in the aquatic and riparian ecosystems within and along the creek extending into Yellowstone National Park.

  6. Massive expansion of the calpain gene family in unicellular eukaryotes.

    PubMed

    Zhao, Sen; Liang, Zhe; Demko, Viktor; Wilson, Robert; Johansen, Wenche; Olsen, Odd-Arne; Shalchian-Tabrizi, Kamran

    2012-09-29

    Calpains are Ca2+-dependent cysteine proteases that participate in a range of crucial cellular processes. Dysfunction of these enzymes may cause, for instance, life-threatening diseases in humans, the loss of sex determination in nematodes and embryo lethality in plants. Although the calpain family is well characterized in animal and plant model organisms, there is a great lack of knowledge about these genes in unicellular eukaryote species (i.e. protists). Here, we study the distribution and evolution of calpain genes in a wide range of eukaryote genomes from major branches in the tree of life. Our investigations reveal 24 types of protein domains that are combined with the calpain-specific catalytic domain CysPc. In total we identify 41 different calpain domain architectures, 28 of these domain combinations have not been previously described. Based on our phylogenetic inferences, we propose that at least four calpain variants were established in the early evolution of eukaryotes, most likely before the radiation of all the major supergroups of eukaryotes. Many domains associated with eukaryotic calpain genes can be found among eubacteria or archaebacteria but never in combination with the CysPc domain. The analyses presented here show that ancient modules present in prokaryotes, and a few de novo eukaryote domains, have been assembled into many novel domain combinations along the evolutionary history of eukaryotes. Some of the new calpain genes show a narrow distribution in a few branches in the tree of life, likely representing lineage-specific innovations. Hence, the functionally important classical calpain genes found among humans and vertebrates make up only a tiny fraction of the calpain family. In fact, a massive expansion of the calpain family occurred by domain shuffling among unicellular eukaryotes and contributed to a wealth of functionally different genes.

  7. Massive expansion of the calpain gene family in unicellular eukaryotes

    PubMed Central

    2012-01-01

    Background Calpains are Ca2+-dependent cysteine proteases that participate in a range of crucial cellular processes. Dysfunction of these enzymes may cause, for instance, life-threatening diseases in humans, the loss of sex determination in nematodes and embryo lethality in plants. Although the calpain family is well characterized in animal and plant model organisms, there is a great lack of knowledge about these genes in unicellular eukaryote species (i.e. protists). Here, we study the distribution and evolution of calpain genes in a wide range of eukaryote genomes from major branches in the tree of life. Results Our investigations reveal 24 types of protein domains that are combined with the calpain-specific catalytic domain CysPc. In total we identify 41 different calpain domain architectures, 28 of these domain combinations have not been previously described. Based on our phylogenetic inferences, we propose that at least four calpain variants were established in the early evolution of eukaryotes, most likely before the radiation of all the major supergroups of eukaryotes. Many domains associated with eukaryotic calpain genes can be found among eubacteria or archaebacteria but never in combination with the CysPc domain. Conclusions The analyses presented here show that ancient modules present in prokaryotes, and a few de novo eukaryote domains, have been assembled into many novel domain combinations along the evolutionary history of eukaryotes. Some of the new calpain genes show a narrow distribution in a few branches in the tree of life, likely representing lineage-specific innovations. Hence, the functionally important classical calpain genes found among humans and vertebrates make up only a tiny fraction of the calpain family. In fact, a massive expansion of the calpain family occurred by domain shuffling among unicellular eukaryotes and contributed to a wealth of functionally different genes. PMID:23020305

  8. Polintons: a hotbed of eukaryotic virus, transposon and plasmid evolution

    PubMed Central

    Krupovic, Mart; Koonin, Eugene V.

    2018-01-01

    Polintons (also known as Mavericks) are large DNA transposons that are widespread in the genomes of eukaryotes. We have recently shown that Polintons encode virus capsid proteins, which suggests that these transposons might form virions, at least under some conditions. In this Opinion article, we delineate the evolutionary relationships among bacterial tectiviruses, Polintons, adenoviruses, virophages, large and giant DNA viruses of eukaryotes of the proposed order ‘Megavirales’, and linear mitochondrial and cytoplasmic plasmids. We hypothesize that Polintons were the first group of eukaryotic double-stranded DNA viruses to evolve from bacteriophages and that they gave rise to most large DNA viruses of eukaryotes and various other selfish genetic elements. PMID:25534808

  9. Eukaryotic DNA Ligases: Structural and Functional Insights

    PubMed Central

    Ellenberger, Tom; Tomkinson, Alan E.

    2010-01-01

    DNA ligases are required for DNA replication, repair, and recombination. In eukaryotes, there are three families of ATP-dependent DNA ligases. Members of the DNA ligase I and IV families are found in all eukaryotes, whereas DNA ligase III family members are restricted to vertebrates. These enzymes share a common catalytic region comprising a DNA-binding domain, a nucleotidyltransferase (NTase) domain, and an oligonucleotide/oligosaccharide binding (OB)-fold domain. The catalytic region encircles nicked DNA with each of the domains contacting the DNA duplex. The unique segments adjacent to the catalytic region of eukaryotic DNA ligases are involved in specific protein-protein interactions with a growing number of DNA replication and repair proteins. These interactions determine the specific cellular functions of the DNA ligase isozymes. In mammals, defects in DNA ligation have been linked with an increased incidence of cancer and neurodegeneration. PMID:18518823

  10. Generation and evolution of hydrothermal fluids at Yellowstone: Insights from the Heart Lake Geyser Basin

    NASA Astrophysics Data System (ADS)

    Lowenstern, J. B.; Bergfeld, D.; Evans, W. C.; Hurwitz, S.

    2012-01-01

    We sampled fumaroles and hot springs from the Heart Lake Geyser Basin (HLGB), measured water and gas discharge, and estimated heat and mass flux from this geothermal area in 2009. The combined data set reveals that diverse fluids share an origin by mixing of deep solute-rich parent water with dilute heated meteoric water, accompanied by subsequent boiling. A variety of chemical and isotopic geothermometers are consistent with a parent water that equilibrates with rocks at 205°C ± 10°C and then undergoes 21% ± 2% adiabatic boiling. Measured diffuse CO2 flux and fumarole compositions are consistent with an initial dissolved CO2 concentration of 21 ± 7 mmol upon arrival at the caldera boundary and prior to southeast flow, boiling, and discharge along the Witch Creek drainage. The calculated advective flow from the basin is 78 ± 16 L s-1of parent thermal water, corresponding to 68 ± 14 MW, or ˜1% of the estimated thermal flux from Yellowstone. Helium and carbon isotopes reveal minor addition of locally derived crustal, biogenic, and meteoric gases as this fluid boils and degasses, reducing the He isotope ratio (Rc/Ra) from 2.91 to 1.09. The HLGB is one of the few thermal areas at Yellowstone that approaches a closed system, where a series of progressively boiled waters can be sampled along with related steam and noncondensable gas. At other Yellowstone locations, steam and gas are found without associated neutral Cl waters (e.g., Hot Spring Basin) or Cl-rich waters emerge without significant associated steam and gas (Upper Geyser Basin).

  11. Generation and evolution of hydrothermal fluids at Yellowstone: Insights from the Heart Lake Geyser Basin

    USGS Publications Warehouse

    Lowenstern, J. B.; Bergfeld, D.; Evans, William C.; Hurwitz, S.

    2012-01-01

    We sampled fumaroles and hot springs from the Heart Lake Geyser Basin (HLGB), measured water and gas discharge, and estimated heat and mass flux from this geothermal area in 2009. The combined data set reveals that diverse fluids share an origin by mixing of deep solute-rich parent water with dilute heated meteoric water, accompanied by subsequent boiling. A variety of chemical and isotopic geothermometers are consistent with a parent water that equilibrates with rocks at 205°C ± 10°C and then undergoes 21% ± 2% adiabatic boiling. Measured diffuse CO2 flux and fumarole compositions are consistent with an initial dissolved CO2 concentration of 21 ± 7 mmol upon arrival at the caldera boundary and prior to southeast flow, boiling, and discharge along the Witch Creek drainage. The calculated advective flow from the basin is 78 ± 16 L s−1 of parent thermal water, corresponding to 68 ± 14 MW, or –1% of the estimated thermal flux from Yellowstone. Helium and carbon isotopes reveal minor addition of locally derived crustal, biogenic, and meteoric gases as this fluid boils and degasses, reducing the He isotope ratio (Rc/Ra) from 2.91 to 1.09. The HLGB is one of the few thermal areas at Yellowstone that approaches a closed system, where a series of progressively boiled waters can be sampled along with related steam and noncondensable gas. At other Yellowstone locations, steam and gas are found without associated neutral Cl waters (e.g., Hot Spring Basin) or Cl-rich waters emerge without significant associated steam and gas (Upper Geyser Basin).

  12. The U S national parks in international perspective: The Yellowstone model or conservation syncretism?

    Treesearch

    John Schelhas

    2010-01-01

    In recent years, international conservation scholars and practitioners have largely dismissed the U.S. national park experience, often termed the “Yellowstone model,” as being too protectionist and exclusionary, and therefore irrelevant and even detrimental to park management and policy in lesser developed countries. A review of the U.S. national park experience finds...

  13. 78 FR 13932 - Yellowstone Valley Railroad, L.L.C.-Discontinuance of Lease and Trackage Rights Operations...

    Federal Register 2010, 2011, 2012, 2013, 2014

    2013-03-01

    ... DEPARTMENT OF TRANSPORTATION Surface Transportation Board [Docket No. AB 991 (Sub-No. 1X)] Yellowstone Valley Railroad, L.L.C.--Discontinuance of Lease and Trackage Rights Operations Exemption--In Richland, Sheridan, Roosevelt, and Daniels Counties, Mont., and McKenzie County, ND On February 11, 2013...

  14. Predation risk, elk, and aspen: tests of a behaviorally mediated trophic cascade in the Greater Yellowstone Ecosystem.

    PubMed

    Winnie, John A

    2012-12-01

    Aspen in the Greater Yellowstone Ecosystem are hypothesized to be recovering from decades of heavy browsing by elk due to a behaviorally mediated trophic cascade (BMTC). Several authors have suggested that wolves interact with certain terrain features, creating places of high predation risk at fine spatial scales, and that elk avoid these places, which creates refugia for plants. This hypothesized BMTC could release aspen from elk browsing pressure, leading to a patchy recovery in places of high risk. I tested whether four specific, hypothesized fine-scale risk factors are correlated with changes in current elk browsing pressure on aspen, or with aspen recruitment since wolf reintroduction, in the Daly Creek drainage in Yellowstone National Park, and near two aspen enclosures outside of the park boundary. Aspen were not responding to hypothesized fine-scale risk factors in ways consistent with the current BMTC hypothesis.

  15. Development of a Wireless Network of Temperature Sensors for Yellowstone National Park (USA)

    NASA Astrophysics Data System (ADS)

    Munday, D. A.; Hutter, T.; Minolli, M.; Obraczka, K.; Manduchi, R.; Petersen, S.; Lowenstern, J. B.; Heasler, H.

    2007-12-01

    Temperature sensors deployed at Yellowstone clearly document that thermal features can vary in temperature on a variety of timescales and show regional correlations unrelated to meteorological variables such as air temperature. Yellowstone National Park (YNP) staff currently measures temperatures at over 40 thermal features and streams within the park, utilizing USGS stream gaging stations and portable data loggers deployed in geyser basins. The latter measure temperature every 1 to 15 minutes, and the data are physically downloaded after about 30 days. Installation of a wireless sensor network would: 1) save considerable time and effort in data retrieval, 2) minimize lost data due to equipment failure, and 3) provide a means to monitor thermal perturbations in near-real time. To meet this need, we developed a wireless sensor network capable of in-situ monitoring of air and water temperature. Temperature sensors are dispersed as nodes that communicate among themselves and through relays to a single base-station linked to the Internet. The small, weatherproof sensors operate unattended for over six months at temperatures as low as -40°C. Each uses an ultra-low-power Texas Instruments' MSP430 microcontroller and an SD card as mass storage. They are powered by 15Ah, 3.6 v, inert Li-ion batteries and transmit data via 900MHz radio modules with a 1-km range. The initial prototype consists of 4 nodes, and is designed to scale with additional nodes for finer spatial resolution and broader coverage. Temperature measurements are asynchronous from node to node, with intervals as frequent as 30 seconds. Data are stored internally to withstand temporary communication failures; underlying intelligent software is capable of re-routing data through alternative nodes to the base station and a MySQL data archiving system. We also developed a Google-Maps-based, front-end that displays the data, recent trends and sensor locations. The system was tested in the Santa Cruz Mountains

  16. Effects of a Squalene Epoxidase Inhibitor, Terbinafine, on Ether Lipid Biosyntheses in a Thermoacidophilic Archaeon, Thermoplasma acidophilum

    PubMed Central

    Kon, Takahide; Nemoto, Naoki; Oshima, Tairo; Yamagishi, Akihiko

    2002-01-01

    The archaeal plasma membrane consists mainly of diether lipids and tetraether lipids instead of the usual ester lipids found in other organisms. Although a molecule of tetraether lipid is thought to be synthesized from two molecules of diether lipids, there is no direct information about the biosynthetic pathway(s) or intermediates of tetraether lipid biosynthesis. In this study, we examined the effects of the fungal squalene epoxidase inhibitor terbinafine on the growth and ether lipid biosyntheses in the thermoacidophilic archaeon Thermoplasma acidophilum. Terbinafine was found to inhibit the growth of T. acidophilum in a concentration-dependent manner. When growing T. acidophilum cells were pulse-labeled with [2-14C]mevalonic acid in the presence of terbinafine, incorporation of radioactivity into the tetraether lipid fraction was strongly suppressed, while accumulation of radioactivity was noted at the position corresponding to diether lipids, depending on the concentration of terbinafine. After the cells were washed with fresh medium and incubated further without the radiolabeled substrate and the inhibitor, the accumulated radioactivity in the diether lipid fraction decreased quickly while that in the tetraether lipids increased simultaneously, without significant changes in the total radioactivity of ether lipids. These results strongly suggest that terbinafine inhibits the biosynthesis of tetraether lipids from a diether-type precursor lipid(s). The terbinafine treatment will be a tool for dissecting tetraether lipid biosynthesis in T. acidophilum. PMID:11844769

  17. Desulfothermobacter acidiphilus gen. nov., sp. nov., a thermoacidophilic sulfate-reducing bacterium isolated from a terrestrial hot spring.

    PubMed

    Frolov, E N; Zayulina, K S; Kopitsyn, D S; Kublanov, I V; Bonch-Osmolovskaya, E A; Chernyh, N A

    2018-03-01

    An anaerobic sulfate-reducing micro-organism, strain 3408-1 T , was isolated from a terrestrial hot spring in Kamchatka peninsula (Russia). The cells were spore-forming rods with a Gram-positive type of cell wall. The new isolate was a moderately thermoacidophilic anaerobe able to grow either by sulfate or thiosulfate respiration with H2 or formate as substrates, or by fermenting yeast extract, maltose, sucrose, glucose and pyruvate. The fermentation products were acetate, CO2 and H2. The pH range for growth was 2.9-6.5, with an optimum at 4.5. The temperature range for growth was 42-70 °C, with an optimum at 55 °C. The G+C content of DNA was 58 mol%. Phylogenetic analysis of the 16S rRNA gene showed that strain 3408-1 T belongs to the family Thermoanaerobacteraceae, order Thermoanaerobacterales and was distantly related to the species of the genus Ammonifex(93-94 % sequence similarity). On the basis of physiological properties and results of phylogenetic analysis, strain 3408-1 T is considered to represent a novel species of a new genus, for which the name Desulfothermobacter acidiphilus gen. nov., sp. nov. is proposed. The type strain is 3408-1 T (=DSM 105356 T =VKM B-3183 T ).

  18. Research Spotlight: Extraordinary uplift of Yellowstone caldera

    NASA Astrophysics Data System (ADS)

    Tretkoff, Ernie

    2011-02-01

    In Yellowstone National Park, located in Wyoming, Montana, and Idaho, the Yellow­stone caldera, which extends about 40 kilometers by 60 kilometers, began in 2004 a period of accelerated uplift, with rates of uplift as high as 7 centimeters per year. From 2006 to 2009 the uplift rate slowed. Global Positioning System (GPS) and interferometric synthetic aperture radar (InSAR) ground deformation measurements described by Chang et al. show that in the northern caldera, uplift decreased from 7 centimeters per year in 2006 to 5 in 2008 and 2 in 2009. In the southwestern portion of the caldera, uplift decreased from 4 centimeters per year in 2006 to 2 in 2008 and 0.5 in 2009, demonstrating a spatial pattern of ground motion decrease from southwest to northeast along the caldera. (”Geophysical Research Letters, doi:10.1029/2010GL045451, 2010)

  19. Single-cell transcriptomics for microbial eukaryotes.

    PubMed

    Kolisko, Martin; Boscaro, Vittorio; Burki, Fabien; Lynn, Denis H; Keeling, Patrick J

    2014-11-17

    One of the greatest hindrances to a comprehensive understanding of microbial genomics, cell biology, ecology, and evolution is that most microbial life is not in culture. Solutions to this problem have mainly focused on whole-community surveys like metagenomics, but these analyses inevitably loose information and present particular challenges for eukaryotes, which are relatively rare and possess large, gene-sparse genomes. Single-cell analyses present an alternative solution that allows for specific species to be targeted, while retaining information on cellular identity, morphology, and partitioning of activities within microbial communities. Single-cell transcriptomics, pioneered in medical research, offers particular potential advantages for uncultivated eukaryotes, but the efficiency and biases have not been tested. Here we describe a simple and reproducible method for single-cell transcriptomics using manually isolated cells from five model ciliate species; we examine impacts of amplification bias and contamination, and compare the efficacy of gene discovery to traditional culture-based transcriptomics. Gene discovery using single-cell transcriptomes was found to be comparable to mass-culture methods, suggesting single-cell transcriptomics is an efficient entry point into genomic data from the vast majority of eukaryotic biodiversity. Copyright © 2014 Elsevier Ltd. All rights reserved.

  20. Arsenic and Antimony Transporters in Eukaryotes

    PubMed Central

    Maciaszczyk-Dziubinska, Ewa; Wawrzycka, Donata; Wysocki, Robert

    2012-01-01

    Arsenic and antimony are toxic metalloids, naturally present in the environment and all organisms have developed pathways for their detoxification. The most effective metalloid tolerance systems in eukaryotes include downregulation of metalloid uptake, efflux out of the cell, and complexation with phytochelatin or glutathione followed by sequestration into the vacuole. Understanding of arsenic and antimony transport system is of high importance due to the increasing usage of arsenic-based drugs in the treatment of certain types of cancer and diseases caused by protozoan parasites as well as for the development of bio- and phytoremediation strategies for metalloid polluted areas. However, in contrast to prokaryotes, the knowledge about specific transporters of arsenic and antimony and the mechanisms of metalloid transport in eukaryotes has been very limited for a long time. Here, we review the recent advances in understanding of arsenic and antimony transport pathways in eukaryotes, including a dual role of aquaglyceroporins in uptake and efflux of metalloids, elucidation of arsenic transport mechanism by the yeast Acr3 transporter and its role in arsenic hyperaccumulation in ferns, identification of vacuolar transporters of arsenic-phytochelatin complexes in plants and forms of arsenic substrates recognized by mammalian ABC transporters. PMID:22489166

  1. Arsenic and antimony transporters in eukaryotes.

    PubMed

    Maciaszczyk-Dziubinska, Ewa; Wawrzycka, Donata; Wysocki, Robert

    2012-01-01

    Arsenic and antimony are toxic metalloids, naturally present in the environment and all organisms have developed pathways for their detoxification. The most effective metalloid tolerance systems in eukaryotes include downregulation of metalloid uptake, efflux out of the cell, and complexation with phytochelatin or glutathione followed by sequestration into the vacuole. Understanding of arsenic and antimony transport system is of high importance due to the increasing usage of arsenic-based drugs in the treatment of certain types of cancer and diseases caused by protozoan parasites as well as for the development of bio- and phytoremediation strategies for metalloid polluted areas. However, in contrast to prokaryotes, the knowledge about specific transporters of arsenic and antimony and the mechanisms of metalloid transport in eukaryotes has been very limited for a long time. Here, we review the recent advances in understanding of arsenic and antimony transport pathways in eukaryotes, including a dual role of aquaglyceroporins in uptake and efflux of metalloids, elucidation of arsenic transport mechanism by the yeast Acr3 transporter and its role in arsenic hyperaccumulation in ferns, identification of vacuolar transporters of arsenic-phytochelatin complexes in plants and forms of arsenic substrates recognized by mammalian ABC transporters.

  2. Volatile Emissions from Hot Spring Basin, Yellowstone National Park, USA

    NASA Astrophysics Data System (ADS)

    Werner, C.; Hurwitz, S.; Bergfeld, D.; Evans, W. C.; Lowenstern, J. B.; Jaworowski, C.; Heasler, H.

    2007-12-01

    The flux and composition of magmatic volatiles were characterized for Hot Spring Basin (HSB), Yellowstone National Park, in August 2006. Diffuse fluxes of CO2 (228 sites) from thermal soil were elevated, with a population distribution similar to that of other acid-sulfate areas in Yellowstone. Thus the estimated diffuse emission rate at HSB is proportionately larger than other areas due to its large area, and could be as high as 1000 td-1 CO2. The diffuse flux of H2S was only above detection limits at 20 of the 31 sites measured. The estimated diffuse H2S emission rate was ~ 4 td-1. Good correlation exists between the log of CO2 flux and shallow soil temperatures, indicating linked steam and gas upflow in the subsurface. The correlation between CO2 and H2S fluxes is weak, and the CO2 / H2S diffuse flux ratio was higher than in fumarolic ratios of CO2 to H2S. This suggests that various reactions, e.g., native sulfur deposition, act to remove H2S from the original gas stream in the diffuse low- temperature environment. Dissolved sulfate flux through Shallow Creek, which drains part of HSB, was ~ 4 td-1. Comparing dissolved sulfate flux to estimates of primary emission of H2S based on fumarolic gas geochemistry gives first order estimates of the sulfur consumed in surficial or subsurface mineral deposition. Total C and S outputs from HSB are comparable to other active volcanic systems.

  3. A Synthetic Biology Framework for Programming Eukaryotic Transcription Functions

    PubMed Central

    Khalil, Ahmad S.; Lu, Timothy K.; Bashor, Caleb J.; Ramirez, Cherie L.; Pyenson, Nora C.; Joung, J. Keith; Collins, James J.

    2013-01-01

    SUMMARY Eukaryotic transcription factors (TFs) perform complex and combinatorial functions within transcriptional networks. Here, we present a synthetic framework for systematically constructing eukaryotic transcription functions using artificial zinc fingers, modular DNA-binding domains found within many eukaryotic TFs. Utilizing this platform, we construct a library of orthogonal synthetic transcription factors (sTFs) and use these to wire synthetic transcriptional circuits in yeast. We engineer complex functions, such as tunable output strength and transcriptional cooperativity, by rationally adjusting a decomposed set of key component properties, e.g., DNA specificity, affinity, promoter design, protein-protein interactions. We show that subtle perturbations to these properties can transform an individual sTF between distinct roles (activator, cooperative factor, inhibitory factor) within a transcriptional complex, thus drastically altering the signal processing behavior of multi-input systems. This platform provides new genetic components for synthetic biology and enables bottom-up approaches to understanding the design principles of eukaryotic transcriptional complexes and networks. PMID:22863014

  4. Water-Quality Assessment of the Yellowstone River Basin, Montana and Wyoming-Water Quality of Fixed Sites, 1999-2001

    USGS Publications Warehouse

    Miller, Kirk A.; Clark, Melanie L.; Wright, Peter R.

    2005-01-01

    The National Water-Quality Assessment Program of the U.S. Geological Survey initiated an assessment in 1997 of the quality of water resources in the Yellowstone River Basin. Water-quality samples regularly were collected during 1999-2001 at 10 fixed sites on streams representing the major environmental settings of the basin. Integrator sites, which are heterogeneous in land use and geology, were established on the mainstem of the Yellowstone River (4 sites) and on three major tributaries?Clarks Fork Yellowstone River (1 site), the Bighorn River (1 site), and the Powder River (1 site). Indicator sites, which are more homogeneous in land use and geology than the integrator sites, were located on minor tributaries with important environmental settings?Soda Butte Creek in a mineral resource area (1 site), the Tongue River in a forested area (1 site), and the Little Powder River in a rangeland area (1 site). Water-quality sampling frequency generally was at least monthly and included field measurements and laboratory analyses of fecal-indicator bacteria, major ions, dissolved solids, nutrients, trace elements, pesticides, and suspended sediment. Median concentrations of fecal coliform and Escherichia coli were largest for basins that were predominantly rangeland and smallest for basins that were predominantly forested. Concentrations of fecal coliform and Escherichia coli significantly varied by season (p-value <0.001); the smallest median concentrations were during January?March and the largest median concentrations were during April?June. Fecal-coliform concentrations exceeded the U.S. Environmental Protection Agency recommended limit for a single sample of 400 colonies per 100 milliliters in 2.6 percent of all samples. Escherichia coli concentrations exceeded the U.S. Environmental Protection Agency recommended limit for a single sample of 298 colonies per 100 milliliters for moderate use, full-body contact recreation in 7.6 percent of all samples. Variations in

  5. Defensins: antifungal lessons from eukaryotes

    PubMed Central

    Silva, Patrícia M.; Gonçalves, Sónia; Santos, Nuno C.

    2014-01-01

    Over the last years, antimicrobial peptides (AMPs) have been the focus of intense research toward the finding of a viable alternative to current antifungal drugs. Defensins are one of the major families of AMPs and the most represented among all eukaryotic groups, providing an important first line of host defense against pathogenic microorganisms. Several of these cysteine-stabilized peptides present a relevant effect against fungi. Defensins are the AMPs with the broader distribution across all eukaryotic kingdoms, namely, Fungi, Plantae, and Animalia, and were recently shown to have an ancestor in a bacterial organism. As a part of the host defense, defensins act as an important vehicle of information between innate and adaptive immune system and have a role in immunomodulation. This multidimensionality represents a powerful host shield, hard for microorganisms to overcome using single approach resistance strategies. Pathogenic fungi resistance to conventional antimycotic drugs is becoming a major problem. Defensins, as other AMPs, have shown to be an effective alternative to the current antimycotic therapies, demonstrating potential as novel therapeutic agents or drug leads. In this review, we summarize the current knowledge on some eukaryotic defensins with antifungal action. An overview of the main targets in the fungal cell and the mechanism of action of these AMPs (namely, the selectivity for some fungal membrane components) are presented. Additionally, recent works on antifungal defensins structure, activity, and cytotoxicity are also reviewed. PMID:24688483

  6. Predicting Bison Migration out of Yellowstone National Park Using Bayesian Models

    PubMed Central

    Geremia, Chris; White, P. J.; Wallen, Rick L.; Watson, Fred G. R.; Treanor, John J.; Borkowski, John; Potter, Christopher S.; Crabtree, Robert L.

    2011-01-01

    Long distance migrations by ungulate species often surpass the boundaries of preservation areas where conflicts with various publics lead to management actions that can threaten populations. We chose the partially migratory bison (Bison bison) population in Yellowstone National Park as an example of integrating science into management policies to better conserve migratory ungulates. Approximately 60% of these bison have been exposed to bovine brucellosis and thousands of migrants exiting the park boundary have been culled during the past two decades to reduce the risk of disease transmission to cattle. Data were assimilated using models representing competing hypotheses of bison migration during 1990–2009 in a hierarchal Bayesian framework. Migration differed at the scale of herds, but a single unifying logistic model was useful for predicting migrations by both herds. Migration beyond the northern park boundary was affected by herd size, accumulated snow water equivalent, and aboveground dried biomass. Migration beyond the western park boundary was less influenced by these predictors and process model performance suggested an important control on recent migrations was excluded. Simulations of migrations over the next decade suggest that allowing increased numbers of bison beyond park boundaries during severe climate conditions may be the only means of avoiding episodic, large-scale reductions to the Yellowstone bison population in the foreseeable future. This research is an example of how long distance migration dynamics can be incorporated into improved management policies. PMID:21340035

  7. Monitoring Geothermal Features in Yellowstone National Park with ATLAS Multispectral Imagery

    NASA Technical Reports Server (NTRS)

    Spruce, Joseph; Berglund, Judith

    2000-01-01

    The National Park Service (NPS) must produce an Environmental Impact Statement for each proposed development in the vicinity of known geothermal resource areas (KGRAs) in Yellowstone National Park. In addition, the NPS monitors indicator KGRAs for environmental quality and is still in the process of mapping many geothermal areas. The NPS currently maps geothermal features with field survey techniques. High resolution aerial multispectral remote sensing in the visible, NIR, SWIR, and thermal spectral regions could enable YNP geothermal features to be mapped more quickly and in greater detail In response, Yellowstone Ecosystems Studies, in partnership with NASA's Commercial Remote Sensing Program, is conducting a study on the use of Airborne Terrestrial Applications Sensor (ATLAS) multispectral data for monitoring geothermal features in the Upper Geyser Basin. ATLAS data were acquired at 2.5 meter resolution on August 17, 2000. These data were processed into land cover classifications and relative temperature maps. For sufficiently large features, the ATLAS data can map geothermal areas in terms of geyser pools and hot springs, plus multiple categories of geothermal runoff that are apparently indicative of temperature gradients and microbial matting communities. In addition, the ATLAS maps clearly identify geyserite areas. The thermal bands contributed to classification success and to the computation of relative temperature. With masking techniques, one can assess the influence of geothermal features on the Firehole River. Preliminary results appear to confirm ATLAS data utility for mapping and monitoring geothermal features. Future work will include classification refinement and additional validation.

  8. Gene Transfers Shaped the Evolution of De Novo NAD+ Biosynthesis in Eukaryotes

    PubMed Central

    Ternes, Chad M.; Schönknecht, Gerald

    2014-01-01

    NAD+ is an essential molecule for life, present in each living cell. It can function as an electron carrier or cofactor in redox biochemistry and energetics, and serves as substrate to generate the secondary messenger cyclic ADP ribose and nicotinic acid adenine dinucleotide phosphate. Although de novo NAD+ biosynthesis is essential, different metabolic pathways exist in different eukaryotic clades. The kynurenine pathway starting with tryptophan was most likely present in the last common ancestor of all eukaryotes, and is active in fungi and animals. The aspartate pathway, detected in most photosynthetic eukaryotes, was probably acquired from the cyanobacterial endosymbiont that gave rise to chloroplasts. An evolutionary analysis of enzymes catalyzing de novo NAD+ biosynthesis resulted in evolutionary trees incongruent with established organismal phylogeny, indicating numerous gene transfers. Endosymbiotic gene transfers probably introduced the aspartate pathway into eukaryotes and may have distributed it among different photosynthetic clades. In addition, several horizontal gene transfers substituted eukaryotic genes with bacterial orthologs. Although horizontal gene transfer is accepted as a key mechanism in prokaryotic evolution, it is supposed to be rare in eukaryotic evolution. The essential metabolic pathway of de novo NAD+ biosynthesis in eukaryotes was shaped by numerous gene transfers. PMID:25169983

  9. Discovering Protein-Coding Genes from the Environment: Time for the Eukaryotes?

    PubMed

    Marmeisse, Roland; Kellner, Harald; Fraissinet-Tachet, Laurence; Luis, Patricia

    2017-09-01

    Eukaryotic microorganisms from diverse environments encompass a large number of taxa, many of them still unknown to science. One strategy to mine these organisms for genes of biotechnological relevance is to use a pool of eukaryotic mRNA directly extracted from environmental samples. Recent reports demonstrate that the resulting metatranscriptomic cDNA libraries can be screened by expression in yeast for a wide range of genes and functions from many of the different eukaryotic taxa. In combination with novel emerging high-throughput technologies, we anticipate that this approach should contribute to exploring the functional diversity of the eukaryotic microbiota. Copyright © 2017 Elsevier Ltd. All rights reserved.

  10. Survey of selected pathogens and blood parameters of northern yellowstone elk: Wolf sanitation effect implications

    USGS Publications Warehouse

    Barber-Meyer, S. M.; White, P.J.; Mech, L.D.

    2007-01-01

    The restoration or conservation of predators could reduce seroprevalences of certain diseases in prey if predation selectively removes animals exhibiting clinical signs. We assessed disease seroprevalences and blood parameters of 115 adult female elk (Cervus elaphus) wintering on the northern range of Yellowstone National Park [YNP] during 2000-2005 and compared them to data collected prior to wolf (Canis lupus) restoration (WR) in 1995 and to two other herds in Montana to assess this prediction. Blood parameters were generally within two standard deviations of the means observed in other Montana herds (Gravelly-Snowcrest [GS] and Garnet Mountain [GM]), but Yellowstone elk had higher seroprevalences of parainfluenza-3 virus (95% CI YNP = 61.1-78.6, GS = 30.3-46.5) and bovine-virus-diarrhea virus type 1 (95% CI YNP = 15.9-31.9, GM = 0). In comparisons between pre-wolf restoration [pre-WR] (i.e., prior to 1995) seroprevalences with those post-wolf restoration [post-WR] in Yellowstone, we found lower seroprevalences for some disease-causing agents post-wolf restoration (e.g., bovine-virus-diarrhea virus type-1 [95% CI pre-WR = 73.1-86.3, post-WR = 15.9-31.9] and bovine-respiratory syncytial virus [95% CI pre-WR = 70.0-83.8, post-WR = 0]), but similar (e.g., Brucella abortus [95% CI pre-WR = 0-4.45, post-WR = 0-4.74] and epizootic hemorrhagic disease virus [95% CI pre-WR = 0, post-WR = 0]) or higher for others (e.g., Anaplasma marginale [95% CI pre-WR = 0, post-WR = 18.5-38.7] and Leptospira spp. [95% CI pre-WR = 0.5-6.5, post-WR = 9.5-23.5]). Though we did not detect an overall strong predation effect through reduced disease seroprevalence using retrospective comparisons with sparse data, our reference values will facilitate future assessments of this issue.

  11. Migration of northern yellowstone elk: Implications of spatial structuring

    USGS Publications Warehouse

    White, P.J.; Proffitt, K.M.; Mech, L.D.; Evans, S.B.; Cunningham, J.A.; Hamlin, K.L.

    2010-01-01

    Migration can enhance survival and recruitment of mammals by increasing access to higher-quality forage or reducing predation risk, or both. We used telemetry locations collected from 140 adult female elk during 20002003 and 20072008 to identify factors influencing the migration of northern Yellowstone elk. Elk wintered in 2 semidistinct herd segments and migrated 10140 km to at least 12 summer areas in Yellowstone National Park (YNP) and nearby areas of Montana. Spring migrations were delayed after winters with increased snow pack, with earlier migration in years with earlier vegetation green-up. Elk wintering at lower elevations outside YNP migrated an average of 13 days earlier than elk at higher elevations. The timing of autumn migrations varied annually, but elk left their summer ranges at about the same time regardless of elevation, wolf numbers, or distance to their wintering areas. Elk monitored for multiple years typically returned to the same summer (96 fidelity, n 52) and winter (61 fidelity, n 41) ranges. Elk that wintered at lower elevations in or near the northwestern portion of the park tended to summer in the western part of YNP (56), and elk that wintered at higher elevations spent summer primarily in the eastern and northern parts of the park (82). Elk did not grossly modify their migration timing, routes, or use areas after wolf restoration. Elk mortality was low during summer and migration (8 of 225 elk-summers). However, spatial segregation and differential mortality and recruitment between herd segments on the northern winter range apparently contributed to a higher proportion of the elk population wintering outside the northwestern portion of YNP and summering in the western portion of the park. This change could shift wolf spatial dynamics more outside YNP and increase the risk of transmission of brucellosis from elk to cattle north of the park. ?? 2010 American Society of Mammalogists.

  12. Censusing marine eukaryotic diversity in the twenty-first century

    PubMed Central

    Knowlton, Nancy

    2016-01-01

    The ocean constitutes one of the vastest and richest biomes on our planet. Most recent estimations, all based on indirect approaches, suggest that there are millions of marine eukaryotic species. Moreover, a large majority of these are small (less than 1 mm), cryptic and still unknown to science. However, this knowledge gap, caused by the lack of diagnostic morphological features in small organisms and the limited sampling of the global ocean, is currently being filled, thanks to new DNA-based approaches. The molecular technique of PCR amplification of homologous gene regions combined with high-throughput sequencing, routinely used to census unculturable prokaryotes, is now also being used to characterize whole communities of marine eukaryotes. Here, we review how this methodological advancement has helped to better quantify the magnitude and patterns of marine eukaryotic diversity, with an emphasis on taxonomic groups previously largely overlooked. We then discuss obstacles remaining to achieve a global understanding of marine eukaryotic diversity. In particular, we argue that 18S variable regions do not provide sufficient taxonomic resolution to census marine life, and suggest combining broad eukaryotic surveys targeting the 18S rRNA region with more taxon-focused analyses of hypervariable regions to improve our understanding of the diversity of species, the functional units of marine ecosystems. This article is part of the themed issue ‘From DNA barcodes to biomes’. PMID:27481783

  13. Archaeal “Dark Matter” and the Origin of Eukaryotes

    PubMed Central

    Williams, Tom A.; Embley, T. Martin

    2014-01-01

    Current hypotheses about the history of cellular life are mainly based on analyses of cultivated organisms, but these represent only a small fraction of extant biodiversity. The sequencing of new environmental lineages therefore provides an opportunity to test, revise, or reject existing ideas about the tree of life and the origin of eukaryotes. According to the textbook three domains hypothesis, the eukaryotes emerge as the sister group to a monophyletic Archaea. However, recent analyses incorporating better phylogenetic models and an improved sampling of the archaeal domain have generally supported the competing eocyte hypothesis, in which core genes of eukaryotic cells originated from within the Archaea, with important implications for eukaryogenesis. Given this trend, it was surprising that a recent analysis incorporating new genomes from uncultivated Archaea recovered a strongly supported three domains tree. Here, we show that this result was due in part to the use of a poorly fitting phylogenetic model and also to the inclusion by an automated pipeline of genes of putative bacterial origin rather than nucleocytosolic versions for some of the eukaryotes analyzed. When these issues were resolved, analyses including the new archaeal lineages placed core eukaryotic genes within the Archaea. These results are consistent with a number of recent studies in which improved archaeal sampling and better phylogenetic models agree in supporting the eocyte tree over the three domains hypothesis. PMID:24532674

  14. Development of a tool for modeling snowmobile and snowcoach noise in Yellowstone and Grand Teton National Parks

    DOT National Transportation Integrated Search

    2010-11-01

    The National Park Service (NPS) develops winter use plans for Yellowstone and Grand Teton National Parks to help manage the use of Over-Snow Vehicles (OSVs), such as snowmobiles and snowcoaches. The use and management of OSVs in the parks is an issue...

  15. Exploring Fingerprints of the Extreme Thermoacidophile Metallosphaera sedula Grown on Synthetic Martian Regolith Materials as the Sole Energy Sources.

    PubMed

    Kölbl, Denise; Pignitter, Marc; Somoza, Veronika; Schimak, Mario P; Strbak, Oliver; Blazevic, Amir; Milojevic, Tetyana

    2017-01-01

    The biology of metal transforming microorganisms is of a fundamental and applied importance for our understanding of past and present biogeochemical processes on Earth and in the Universe. The extreme thermoacidophile Metallosphaera sedula is a metal mobilizing archaeon, which thrives in hot acid environments (optimal growth at 74°C and pH 2.0) and utilizes energy from the oxidation of reduced metal inorganic sources. These characteristics of M. sedula make it an ideal organism to further our knowledge of the biogeochemical processes of possible life on extraterrestrial planetary bodies. Exploring the viability and metal extraction capacity of M. sedula living on and interacting with synthetic extraterrestrial minerals, we show that M. sedula utilizes metals trapped in the Martian regolith simulants (JSC Mars 1A; P-MRS; S-MRS; MRS07/52) as the sole energy sources. The obtained set of microbiological and mineralogical data suggests that M. sedula actively colonizes synthetic Martian regolith materials and releases free soluble metals. The surface of bioprocessed Martian regolith simulants is analyzed for specific mineralogical fingerprints left upon M. sedula growth. The obtained results provide insights of biomining of extraterrestrial material as well as of the detection of biosignatures implementing in life search missions.

  16. Taking Yellowstone's Temperature: a New Clinopyroxene Geothermometer to Improve Timescales of Pre-eruptive Events

    NASA Astrophysics Data System (ADS)

    Brugman, K. K.; Till, C. B.

    2017-12-01

    The goal of our research is to quantify the time period between events in the magma chamber and eruption for the Scaup Lake rhyolite lava, as it erupted after a period of quiescence similar to what Yellowstone is experiencing today. The overarching goal of studies such as this that focus on past eruptions is to provide context and statistics that will ultimately improve volcano monitoring at different types of active volcanoes. The Scaup Lake flow contains zoned minerals (e.g., feldspar, zircon, clinopyroxene) that record multiple magma injection events shortly before they were erupted. Our previous work using nano-scale elemental concentration profiles from zoned clinopyroxene (cpx) as a diffusion dating tool reinforced our hypothesis that different minerals may not record the same series of pre-eruptive events, and that cpx crystal rims record older events in the Scaup Lake flow (on the order of 100s of years prior to eruption [Brugman et al., AGU OSPA talk, 2016]) than do feldspar rims (< 10 months and 10-40 years prior to eruption [Till et al., Geology, 2015]). In light of new temperature data, we have updated our diffusion dating results to better quantify pre-eruption timescales at Yellowstone.

  17. Special Area Management Plan (SAMP) Upper Yellowstone River, Montana: Environmental Assessment, FONSI, and Selected Alternative

    DTIC Science & Technology

    2011-04-01

    Mitigation Procedure NEPA National Environmental Policy Act NHPA National Historic Preservation Act NRCS Natural Resources Conservation Service NWP...United States Geological Service, Biological Research Division USFWS US Fish and Wildlife Service YNP Yellowstone National Park 4 5 Finding of No...Significant Impact In accordance with the National Environmental Policy Act and its implementing regulations, the attached environmental assessment (EA

  18. Climate influences on whitebark pine mortality from mountain pine beetle in the Greater Yellowstone Ecosystem

    Treesearch

    Polly C. Buotte; Jeffrey A. Hicke; Haiganoush K. Preisler; John T. Abatzoglou; Kenneth F. Raffa; Jesse A. Logan

    2016-01-01

    Extensive mortality of whitebark pine, beginning in the early to mid-2000s, occurred in the Greater Yellowstone Ecosystem (GYE) of the western USA, primarily from mountain pine beetle but also from other threats such as white pine blister rust. The climatic drivers of this recent mortality and the potential for future whitebark pine mortality from mountain pine beetle...

  19. Complete and draft genome sequences of six members of the Aquificales.

    PubMed

    Reysenbach, Anna-Louise; Hamamura, N; Podar, M; Griffiths, E; Ferreira, S; Hochstein, R; Heidelberg, J; Johnson, J; Mead, D; Pohorille, A; Sarmiento, M; Schweighofer, K; Seshadri, R; Voytek, M A

    2009-03-01

    The Aquificales are widespread in marine and terrestrial hydrothermal environments. Here, we report the complete and draft genome sequences of six new members of the Aquificales: two marine species, Persephonella marina strain EX-H1 and Hydrogenivirga strain 128-5-R1 (from the East Pacific Rise, 9 degrees 50.3'N, 104 degrees 17.5'W, and the Eastern Lau Spreading Center, 176 degrees 11.5'W, 20 degrees 45.8'S, respectively), and four terrestrial isolates, Sulfurihydrogenibium azorense strain Az-Fu1, Sulfurihydrogenibium yellowstonense strain SS-5, and Sulfurihydrogenibium strain Y03AOP1 (from Furnas, Azores, Portugal, and Calcite Springs and Obsidian Pool in Yellowstone National Park, United States, respectively), and the only thermoacidophilic isolate, Hydrogenobaculum strain Y04AAS1 (from a stream adjacent to Obsidian Pool). Significant differences among the different species exist that include nitrogen metabolism, hydrogen utilization, chemotaxis, and signal transduction, providing insights into their ecological niche adaptations.

  20. Complete and Draft Genome Sequences of Six Members of the Aquificales▿

    PubMed Central

    Reysenbach, Anna-Louise; Hamamura, N.; Podar, M.; Griffiths, E.; Ferreira, S.; Hochstein, R.; Heidelberg, J.; Johnson, J.; Mead, D.; Pohorille, A.; Sarmiento, M.; Schweighofer, K.; Seshadri, R.; Voytek, M. A.

    2009-01-01

    The Aquificales are widespread in marine and terrestrial hydrothermal environments. Here, we report the complete and draft genome sequences of six new members of the Aquificales: two marine species, Persephonella marina strain EX-H1 and Hydrogenivirga strain 128-5-R1 (from the East Pacific Rise, 9°50.3′N, 104°17.5′W, and the Eastern Lau Spreading Center, 176°11.5′W, 20°45.8′S, respectively), and four terrestrial isolates, Sulfurihydrogenibium azorense strain Az-Fu1, Sulfurihydrogenibium yellowstonense strain SS-5, and Sulfurihydrogenibium strain Y03AOP1 (from Furnas, Azores, Portugal, and Calcite Springs and Obsidian Pool in Yellowstone National Park, United States, respectively), and the only thermoacidophilic isolate, Hydrogenobaculum strain Y04AAS1 (from a stream adjacent to Obsidian Pool). Significant differences among the different species exist that include nitrogen metabolism, hydrogen utilization, chemotaxis, and signal transduction, providing insights into their ecological niche adaptations. PMID:19136599

  1. Complete and draft genome sequences of six members of the aquificales

    USGS Publications Warehouse

    Reysenbach, A.-L.; Hamamura, N.; Podar, M.; Griffiths, E.; Ferreira, S.; Hochstein, R.; Heidelberg, J.; Johnson, J.; Mead, D.; Pohorille, A.; Sarmiento, M.; Sehweighofer, K.; Seshadri, R.; Voytek, M.A.

    2009-01-01

    The Aquificales are widespread in marine and terrestrial hydrothermal environments. Here, we report the complete and draft genome sequences of six new members of the Aquificales: two marine species, Persephonella marina strain EX-H1 and Hydrogenivirga strain 128-5-R1 (from the East Pacific Rise, 9??50.3???N, 104??17.5???W, and the Eastern Lau Spreading Center, 176??11.5???W, 20??45.8???S, respectively), and four terrestrial isolates, Sulfuri-hydrogenibium azorense strain Az-Ful, Sulfurihydrogenibium yellowstonense strain SS-5, and Sulfurihydro-genibium strain Y03AOP1 (from Furnas, Azores, Portugal, and Calcite Springs and Obsidian Pool in Yellowstone National Park, United States, respectively), and the only thermoacidophilic isolate, Hydrogenobaculum strain Y04AAS1 (from a stream adjacent to Obsidian Pool). Significant differences among the different species exist that include nitrogen metabolism, hydrogen utilization, Chemotaxis, and signal transduction, providing insights into their ecological niche adaptations. Copyright ?? 2009, American Society for Microbiology. All Rights Reserved.

  2. The battle for Yellowstone: Morality and the  sacred roots of environmental conflict, by Justin Farrell

    Treesearch

    John Schelhas

    2017-01-01

    A growing number of intractable environmental conflicts involving interest groups with deeply held beliefs are resisting resolution in spite of extensive scientific analysis and legal and bureaucratic attention. Justin Farrell addresses three such conflicts in the Greater Yellowstone Ecosystem (GYE) as moral and spiritual conflicts, each uniquely animated by history,...

  3. Phylogenetic analysis of the hyperthermophilic pink filament community in Octopus Spring, Yellowstone National Park

    DOE Office of Scientific and Technical Information (OSTI.GOV)

    Reysenbach, A.L.; Wickham, G.S.; Pace, N.R.

    1994-06-01

    This study uses a molecular phylogenetic approach to characterize the pink filament community at the outflow of Octopus Spring in Yellowstone National Park. The temperature range of the spring is from 84 to 88 C. The authors show that the pink filaments are most closely related to the hydrogen-oxidizing bacterium Aquifex pyrophilus and a close relative Hydrogenobacter thermophilus. 38 refs., 4 figs., 1 tab.

  4. Eukaryotic Chemotaxis

    PubMed Central

    Rappel, Wouter-Jan; Loomis, William F.

    2009-01-01

    During eukaryotic chemotaxis, external chemical gradients guide the crawling motion of cells. This process plays an important role in a large variety of biological systems and has wide ranging medical implications. New experimental techniques including confocal microscopy and microfluidics have advanced our understanding of chemotaxis while numerical modeling efforts are beginning to offer critical insights. In this short review, we survey the current experimental status of the field by dividing chemotaxis into three distinct “modules”: directional sensing, polarity and motility. For each module, we attempt to point out potential new directions of research and discuss how modeling studies interact with experimental investigations. PMID:20648241

  5. Origin and Evolution of the Self-Organizing Cytoskeleton in the Network of Eukaryotic Organelles

    PubMed Central

    Jékely, Gáspár

    2014-01-01

    The eukaryotic cytoskeleton evolved from prokaryotic cytomotive filaments. Prokaryotic filament systems show bewildering structural and dynamic complexity and, in many aspects, prefigure the self-organizing properties of the eukaryotic cytoskeleton. Here, the dynamic properties of the prokaryotic and eukaryotic cytoskeleton are compared, and how these relate to function and evolution of organellar networks is discussed. The evolution of new aspects of filament dynamics in eukaryotes, including severing and branching, and the advent of molecular motors converted the eukaryotic cytoskeleton into a self-organizing “active gel,” the dynamics of which can only be described with computational models. Advances in modeling and comparative genomics hold promise of a better understanding of the evolution of the self-organizing cytoskeleton in early eukaryotes, and its role in the evolution of novel eukaryotic functions, such as amoeboid motility, mitosis, and ciliary swimming. PMID:25183829

  6. An archaeal origin of eukaryotes supports only two primary domains of life.

    PubMed

    Williams, Tom A; Foster, Peter G; Cox, Cymon J; Embley, T Martin

    2013-12-12

    The discovery of the Archaea and the proposal of the three-domains 'universal' tree, based on ribosomal RNA and core genes mainly involved in protein translation, catalysed new ideas for cellular evolution and eukaryotic origins. However, accumulating evidence suggests that the three-domains tree may be incorrect: evolutionary trees made using newer methods place eukaryotic core genes within the Archaea, supporting hypotheses in which an archaeon participated in eukaryotic origins by founding the host lineage for the mitochondrial endosymbiont. These results provide support for only two primary domains of life--Archaea and Bacteria--because eukaryotes arose through partnership between them.

  7. Biofilm formation and interspecies interactions in mixed cultures of thermo-acidophilic archaea Acidianus spp. and Sulfolobus metallicus.

    PubMed

    Castro, Camila; Zhang, Ruiyong; Liu, Jing; Bellenberg, Sören; Neu, Thomas R; Donati, Edgardo; Sand, Wolfgang; Vera, Mario

    2016-09-01

    The understanding of biofilm formation by bioleaching microorganisms is of great importance for influencing mineral dissolution rates and to prevent acid mine drainage (AMD). Thermo-acidophilic archaea such as Acidianus, Sulfolobus and Metallosphaera are of special interest due to their ability to perform leaching at high temperatures, thereby enhancing leaching rates. In this work, leaching experiments and visualization by microscopy of cell attachment and biofilm formation patterns of the crenarchaeotes Sulfolobus metallicus DSM 6482(T) and the Acidianus isolates DSM 29038 and DSM 29099 in pure and mixed cultures on sulfur or pyrite were studied. Confocal laser scanning microscopy (CLSM) combined with fluorescent dyes as well as fluorescently labeled lectins were used to visualize different components (e.g. DNA, proteins or glycoconjugates) of the aforementioned species. The data indicate that cell attachment and the subsequently formed biofilms were species- and substrate-dependent. Pyrite leaching experiments coupled with pre-colonization and further inoculation with a second species suggest that both species may negatively influence each other during pyrite leaching with respect to initial attachment and pyrite dissolution rates. In addition, the investigation of binary biofilms on pyrite showed that both species were heterogeneously distributed on pyrite surfaces in the form of individual cells or microcolonies. Physical contact between the two species seems to occur, as revealed by specific lectins able to specifically bind single species within mixed cultures. Copyright © 2016 Institut Pasteur. Published by Elsevier Masson SAS. All rights reserved.

  8. Eukaryotic systematics: a user's guide for cell biologists and parasitologists.

    PubMed

    Walker, Giselle; Dorrell, Richard G; Schlacht, Alexander; Dacks, Joel B

    2011-11-01

    Single-celled parasites like Entamoeba, Trypanosoma, Phytophthora and Plasmodium wreak untold havoc on human habitat and health. Understanding the position of the various protistan pathogens in the larger context of eukaryotic diversity informs our study of how these parasites operate on a cellular level, as well as how they have evolved. Here, we review the literature that has brought our understanding of eukaryotic relationships from an idea of parasites as primitive cells to a crystallized view of diversity that encompasses 6 major divisions, or supergroups, of eukaryotes. We provide an updated taxonomic scheme (for 2011), based on extensive genomic, ultrastructural and phylogenetic evidence, with three differing levels of taxonomic detail for ease of referencing and accessibility (see supplementary material at Cambridge Journals On-line). Two of the most pressing issues in cellular evolution, the root of the eukaryotic tree and the evolution of photosynthesis in complex algae, are also discussed along with ideas about what the new generation of genome sequencing technologies may contribute to the field of eukaryotic systematics. We hope that, armed with this user's guide, cell biologists and parasitologists will be encouraged about taking an increasingly evolutionary point of view in the battle against parasites representing real dangers to our livelihoods and lives.

  9. Reconstruction of the sialylation pathway in the ancestor of eukaryotes.

    PubMed

    Petit, Daniel; Teppa, Elin; Cenci, Ugo; Ball, Steven; Harduin-Lepers, Anne

    2018-02-13

    The biosynthesis of sialylated molecules of crucial relevance for eukaryotic cell life is achieved by sialyltransferases (ST) of the CAZy family GT29. These enzymes are widespread in the Deuterostoma lineages and more rarely described in Protostoma, Viridiplantae and various protist lineages raising the question of their presence in the Last eukaryotes Common Ancestor (LECA). If so, it is expected that the main enzymes associated with sialic acids metabolism are also present in protists. We conducted phylogenomic and protein sequence analyses to gain insights into the origin and ancient evolution of ST and sialic acid pathway in eukaryotes, Bacteria and Archaea. Our study uncovered the unreported occurrence of bacterial GT29 ST and evidenced the existence of 2 ST groups in the LECA, likely originating from the endosymbiotic event that generated mitochondria. Furthermore, distribution of the major actors of the sialic acid pathway in the different eukaryotic phyla indicated that these were already present in the LECA, which could also access to this essential monosaccharide either endogenously or via a sialin/sialidase uptake mechanism involving vesicles. This pathway was lost in several basal eukaryotic lineages including Archaeplastida despite the presence of two different ST groups likely assigned to other functions.

  10. Solute and geothermal flux monitoring using electrical conductivity in the Madison, Firehole, and Gibbon Rivers, Yellowstone National Park

    USGS Publications Warehouse

    McCleskey, R. Blaine; Clor, Laura; Lowenstern, Jacob B.; Evans, William C.; Nordstrom, D. Kirk; Heasler, Henry; Huebner, Mark

    2012-01-01

    The thermal output from the Yellowstone magma chamber can be estimated from the Cl flux in the major rivers in Yellowstone National Park; and by utilizing continuous discharge and electrical conductivity measurements the Cl flux can be calculated. The relationship between electrical conductivity and concentrations of Cl and other geothermal solutes (Na, SO4, F, HCO3, SiO2, K, Li, B, and As) was quantified at monitoring sites along the Madison, Gibbon, and Firehole Rivers, which receive discharge from some of the largest and most active geothermal areas in Yellowstone. Except for some trace elements, most solutes behave conservatively and the ratios between geothermal solute concentrations are constant in the Madison, Gibbon, and Firehole Rivers. Hence, dissolved concentrations of Cl, Na, SO4, F, HCO3, SiO2, K, Li, Ca, B and As correlate well with conductivity (R2 > 0.9 for most solutes) and most exhibit linear trends. The 2011 flux for Cl, SO4, F and HCO3 determined using automated conductivity sensors and discharge data from nearby USGS gaging stations is in good agreement with those of previous years (1983–1994 and 1997–2008) at each of the monitoring sites. Continuous conductivity monitoring provides a cost- and labor-effective alternative to existing protocols whereby flux is estimated through manual collection of numerous water samples and subsequent chemical analysis. Electrical conductivity data also yield insights into a variety of topics of research interest at Yellowstone and elsewhere: (1) Geyser eruptions are easily identified and the solute flux quantified with conductivity data. (2) Short-term heavy rain events can produce conductivity anomalies due to dissolution of efflorescent salts that are temporarily trapped in and around geyser basins during low-flow periods. During a major rain event in October 2010, 180,000 kg of additional solute was measured in the Madison River. (3) The output of thermal water from the Gibbon River appears to have

  11. Spatial and temporal geochemical trends in the hydrothermal system of Yellowstone National Park: Inferences from river solute fluxes

    USGS Publications Warehouse

    Hurwitz, S.; Lowenstern, J. B.; Heasler, H.

    2007-01-01

    We present and analyze a chemical dataset that includes the concentrations and fluxes of HCO3-, SO42-, Cl-, and F- in the major rivers draining Yellowstone National Park (YNP) for the 2002-2004 water years (1 October 2001 - 30 September 2004). The total (molar) flux in all rivers decreases in the following order, HCO3- > Cl- > SO42- > F-, but each river is characterized by a distinct chemical composition, implying large-scale spatial heterogeneity in the inputs of the various solutes. The data also display non-uniform temporal trends; whereas solute concentrations and fluxes are nearly constant during base-flow conditions, concentrations decrease, solute fluxes increase, and HCO3-/Cl-, and SO42-/Cl- increase during the late-spring high-flow period. HCO3-/SO42- decreases with increasing discharge in the Madison and Falls Rivers, but increases with discharge in the Yellowstone and Snake Rivers. The non-linear relations between solute concentrations and river discharge and the change in anion ratios associated with spring runoff are explained by mixing between two components: (1) a component that is discharged during base-flow conditions and (2) a component associated with snow-melt runoff characterized by higher HCO3-/Cl- and SO42-/Cl-. The fraction of the second component is greater in the Yellowstone and Snake Rivers, which host lakes in their drainage basins and where a large fraction of the solute flux follows thaw of ice cover in the spring months. Although the total river HCO3- flux is larger than the flux of other solutes (HCO3-/Cl- ??? 3), the CO2 equivalent flux is only ??? 1% of the estimated emission of magmatic CO2 soil emissions from Yellowstone. No anomalous solute flux in response to perturbations in the hydrothermal system was observed, possibly because gage locations are too distant from areas of disturbance, or because of the relatively low sampling frequency. In order to detect changes in river hydrothermal solute fluxes, sampling at higher

  12. Origin and evolution of the self-organizing cytoskeleton in the network of eukaryotic organelles.

    PubMed

    Jékely, Gáspár

    2014-09-02

    The eukaryotic cytoskeleton evolved from prokaryotic cytomotive filaments. Prokaryotic filament systems show bewildering structural and dynamic complexity and, in many aspects, prefigure the self-organizing properties of the eukaryotic cytoskeleton. Here, the dynamic properties of the prokaryotic and eukaryotic cytoskeleton are compared, and how these relate to function and evolution of organellar networks is discussed. The evolution of new aspects of filament dynamics in eukaryotes, including severing and branching, and the advent of molecular motors converted the eukaryotic cytoskeleton into a self-organizing "active gel," the dynamics of which can only be described with computational models. Advances in modeling and comparative genomics hold promise of a better understanding of the evolution of the self-organizing cytoskeleton in early eukaryotes, and its role in the evolution of novel eukaryotic functions, such as amoeboid motility, mitosis, and ciliary swimming. Copyright © 2014 Cold Spring Harbor Laboratory Press; all rights reserved.

  13. State-space modeling to support management of brucellosis in the Yellowstone bison population

    USGS Publications Warehouse

    Hobbs, N. Thompson; Geremia, Chris; Treanor, John; Wallen, Rick; White, P.J.; Hooten, Mevin B.; Rhyan, Jack C.

    2015-01-01

    The bison (Bison bison) of the Yellowstone ecosystem, USA, exemplify the difficulty of conserving large mammals that migrate across the boundaries of conservation areas. Bison are infected with brucellosis (Brucella abortus) and their seasonal movements can expose livestock to infection. Yellowstone National Park has embarked on a program of adaptive management of bison, which requires a model that assimilates data to support management decisions. We constructed a Bayesian state-space model to reveal the influence of brucellosis on the Yellowstone bison population. A frequency-dependent model of brucellosis transmission was superior to a density-dependent model in predicting out-of-sample observations of horizontal transmission probability. A mixture model including both transmission mechanisms converged on frequency dependence. Conditional on the frequency-dependent model, brucellosis median transmission rate was 1.87 yr−1. The median of the posterior distribution of the basic reproductive ratio (R0) was 1.75. Seroprevalence of adult females varied around 60% over two decades, but only 9.6 of 100 adult females were infectious. Brucellosis depressed recruitment; estimated population growth rate λ averaged 1.07 for an infected population and 1.11 for a healthy population. We used five-year forecasting to evaluate the ability of different actions to meet management goals relative to no action. Annually removing 200 seropositive female bison increased by 30-fold the probability of reducing seroprevalence below 40% and increased by a factor of 120 the probability of achieving a 50% reduction in transmission probability relative to no action. Annually vaccinating 200 seronegative animals increased the likelihood of a 50% reduction in transmission probability by fivefold over no action. However, including uncertainty in the ability to implement management by representing stochastic variation in the number of accessible bison dramatically reduced the probability of

  14. Gonococcal attachment to eukaryotic cells

    DOE Office of Scientific and Technical Information (OSTI.GOV)

    James, J.F.; Lammel, C.J.; Draper, D.L.

    The attachment of Neisseria gonorrhoeae to eukaryotic cells grown in tissue culture was analyzed by use of light and electron microscopy and by labeling of the bacteria with (/sup 3/H)- and (/sup 14/C)adenine. Isogenic piliated and nonpiliated N. gonorrhoeae from opaque and transparent colonies were studied. The results of light microscopy studies showed that the gonococci attached to cells of human origin, including Flow 2000, HeLa 229, and HEp 2. Studies using radiolabeled gonococci gave comparable results. Piliated N. gonorrhoeae usually attached in larger numbers than nonpiliated organisms, and those from opaque colonies attached more often than isogenic variants frommore » transparent colonies. Day-to-day variation in rate of attachment was observed. Scanning electron microscopy studies showed the gonococcal attachment to be specific for microvilli of the host cells. It is concluded that more N. gonorrhoeae from opaque colonies, as compared with isogenic variants from transparent colonies, attach to eukaryotic cells grown in tissue culture.« less

  15. Vulnerability of landscape carbon fluxes to future climate and fire in the Greater Yellowstone Ecosystem

    Treesearch

    Erica A. H. Smithwick; Anthony L. Westerling; Monica G. Turner; William H. Romme; Michael G. Ryan

    2011-01-01

    More frequent fires under climate warming are likely to alter terrestrial carbon (C) stocks by reducing the amount of C stored in biomass and soil. However, the thresholds of fire frequency that could shift landscapes from C sinks to C sources under future climates are not known. We used the Greater Yellowstone Ecosystem (GYE) as a case study to explore the conditions...

  16. Post-caldera volcanism: In situ measurement of U-Pb age and oxygen isotope ratio in Pleistocene zircons from Yellowstone caldera

    USGS Publications Warehouse

    Bindeman, I.N.; Valley, J.W.; Wooden, J.L.; Persing, H.M.

    2001-01-01

    The Yellowstone Plateau volcanic field, the site of some of the largest known silicic volcanic eruptions, is the present location of NE-migrating hotspot volcanic activity. Most volcanic rocks in the Yellowstone caldera (0.6 Ma), which formed in response to the climactic eruption of 1000 km3 of Lava Creek Tuff (LCT), have unusually low oxygen isotope ratios. Ion microprobe analysis of both U-Pb age and ??18O in zircons from these low-??18O lavas reveals evidence of complex inheritance and remelting. A majority of analyzed zircons from low-??18O lavas erupted inside the Yellowstone caldera have cores that range in age from 2.4 to 0.7 Ma, significantly older than their eruption ages (0.5-0.4 Ma). These ages and the high-??18O cores indicate that these lavas are largely derived from nearly total remelting of normal-??18O Huckleberry Ridge Tuff (HRT) and other pre-LCT volcanic rocks. A post-HRT low-??18O lava shows similar inheritance of HRT-age zircons. The recycling of volcanic rocks by shallow remelting can change the water content and eruptive potential of magma. This newly proposed mechanism of intracaldera volcanism is best studied by combining in situ analysis of oxygen and U-Pb isotope ratios of individual crystals. ?? 2001 Elsevier Science B.V. All rights reserved.

  17. Monitoring white pine blister rust infection and mortality in whitebark pine in the Greater Yellowstone ecosystem

    Treesearch

    Cathie Jean; Erin Shanahan; Rob Daley; Gregg DeNitto; Dan Reinhart; Chuck Schwartz

    2011-01-01

    There is a critical need for information on the status and trend of whitebark pine (Pinus albicaulis) in the Greater Yellowstone Ecosystem (GYE). Concerns over the combined effects of white pine blister rust (WPBR, Cronartium ribicola), mountain pine beetle (MPB, Dendroctonus ponderosae), and climate change prompted an interagency working group to design and implement...

  18. Gene Transfer in Eukaryotic Cells Using Activated Dendrimers

    NASA Astrophysics Data System (ADS)

    Dennig, Jörg

    Gene transfer into eukaryotic cells plays an important role in cell biology. Over the last 30 years a number of transfection methods have been developed to mediate gene transfer into eukaryotic cells. Classical methods include co-precipitation of DNA with calcium phosphate, charge-dependent precipitation of DNA with DEAE-dextran, electroporation of nucleic acids, and formation of transfection complexes between DNA and cationic liposomes. Gene transfer technologies based on activated PAMAM-dendrimers provide another class of transfection reagents. PAMAM-dendrimers are highly branched, spherical molecules. Activation of newly synthesized dendrimers involves hydrolytic removal of some of the branches, and results in a molecule with a higher degree of flexibility. Activated dendrimers assemble DNA into compact structures via charge interactions. Activated dendrimer - DNA complexes bind to the cell membrane of eukaryotic cells, and are transported into the cell by non-specific endocytosis. A structural model of the activated dendrimer - DNA complex and a potential mechanism for its uptake into cells will be discussed.

  19. The Evolution of Silicon Transport in Eukaryotes

    PubMed Central

    Marron, Alan O.; Ratcliffe, Sarah; Wheeler, Glen L.; Goldstein, Raymond E.; King, Nicole; Not, Fabrice; de Vargas, Colomban; Richter, Daniel J.

    2016-01-01

    Biosilicification (the formation of biological structures from silica) occurs in diverse eukaryotic lineages, plays a major role in global biogeochemical cycles, and has significant biotechnological applications. Silicon (Si) uptake is crucial for biosilicification, yet the evolutionary history of the transporters involved remains poorly known. Recent evidence suggests that the SIT family of Si transporters, initially identified in diatoms, may be widely distributed, with an extended family of related transporters (SIT-Ls) present in some nonsilicified organisms. Here, we identify SITs and SIT-Ls in a range of eukaryotes, including major silicified lineages (radiolarians and chrysophytes) and also bacterial SIT-Ls. Our evidence suggests that the symmetrical 10-transmembrane-domain SIT structure has independently evolved multiple times via duplication and fusion of 5-transmembrane-domain SIT-Ls. We also identify a second gene family, similar to the active Si transporter Lsi2, that is broadly distributed amongst siliceous and nonsiliceous eukaryotes. Our analyses resolve a distinct group of Lsi2-like genes, including plant and diatom Si-responsive genes, and sequences unique to siliceous sponges and choanoflagellates. The SIT/SIT-L and Lsi2 transporter families likely contribute to biosilicification in diverse lineages, indicating an ancient role for Si transport in eukaryotes. We propose that these Si transporters may have arisen initially to prevent Si toxicity in the high Si Precambrian oceans, with subsequent biologically induced reductions in Si concentrations of Phanerozoic seas leading to widespread losses of SIT, SIT-L, and Lsi2-like genes in diverse lineages. Thus, the origin and diversification of two independent Si transporter families both drove and were driven by ancient ocean Si levels. PMID:27729397

  20. Sensitivity of alpine and subalpine lakes to acidification from atmospheric deposition in Grand Teton National Park and Yellowstone National Park, Wyoming

    USGS Publications Warehouse

    Nanus, Leora; Campbell, Donald H.; Williams, Mark W.

    2005-01-01

    The sensitivity of 400 lakes in Grand Teton and Yellowstone National Parks to acidification from atmospheric deposition of nitrogen and sulfur was estimated based on statistical relations between acid-neutralizing capacity concentrations and basin characteristics to aid in the design of a long-term monitoring plan for Outstanding Natural Resource Waters. Acid-neutralizing capacity concentrations that were measured at 52 lakes in Grand Teton and 23 lakes in Yellowstone during synoptic surveys were used to calibrate the statistical models. Three acid-neutralizing capacity concentration bins (bins) were selected that are within the U.S. Environmental Protection Agency criteria of sensitive to acidification; less than 50 microequivalents per liter (?eq/L) (0-50), less than 100 ?eq/L (0-100), and less than 200 ?eq/L (0-200). The development of discrete bins enables resource managers to have the ability to change criteria based on the focus of their study. Basin-characteristic information was derived from Geographic Information System data sets. The explanatory variables that were considered included bedrock type, basin slope, basin aspect, basin elevation, lake area, basin area, inorganic nitrogen deposition, sulfate deposition, hydrogen ion deposition, basin precipitation, soil type, and vegetation type. A logistic regression model was developed and applied to lake basins greater than 1 hectare in Grand Teton (n = 106) and Yellowstone (n = 294). A higher percentage of lakes in Grand Teton than in Yellowstone were predicted to be sensitive to atmospheric deposition in all three bins. For Grand Teton, 7 percent of lakes had a greater than 60-percent probability of having acid-neutralizing capacity concentrations in the 0-50 bin, 36 percent of lakes had a greater than 60-percent probability of having acid-neutralizing capacity concentrations in the 0-100 bin, and 59 percent of lakes had a greater than 60-percent probability of having acid-neutralizing capacity

  1. Teleseismic studies indicate existence of deep magma chamber below Yellowstone National Park

    USGS Publications Warehouse

    Iyer, H.M.

    1974-01-01

    The secrets of Yellowstone National Park's spectacular geysers and other hot water and steam phenomena are being explored by the U.S Geological Survey with the aid of distant earthquakes (teleseisms). For some time geologists have known that the remarkable array of steam and hot water displays, for which the park is internationally famous, is associated with intense volcanic activity that occurred in the reigon during the last 2 million years. The most recent volcanic eruption took place about 600,000 years ago creating a large caldera, or crater, 75 kilometers long and 50 kilometers wide. This caldera occupies most of the central part of the present-day park. geologists knew from studies of the surface geology that the volcanic activity which creates the present caldera was caused the present caldera was caused by a large body of magma, a mixture composed of molten rock, hot liquids, and gases, that had forced its way from the deep interior of the Earth into the upper mantle and crust below the Yellowstone area. The dimensions and depth below the surface of this magma body were largely unknown, however, because there was no way to "see" deep below the surface. A tool was needed that would enable earth scientists to look into the curst and upper mantle of the Earth. Such a tool became availabe with the installation by the Geological Survey of a network of seismograph stations in the park. 

  2. How many novel eukaryotic 'kingdoms'? Pitfalls and limitations of environmental DNA surveys

    PubMed Central

    Berney, Cédric; Fahrni, José; Pawlowski, Jan

    2004-01-01

    Background Over the past few years, the use of molecular techniques to detect cultivation-independent, eukaryotic diversity has proven to be a powerful approach. Based on small-subunit ribosomal RNA (SSU rRNA) gene analyses, these studies have revealed the existence of an unexpected variety of new phylotypes. Some of them represent novel diversity in known eukaryotic groups, mainly stramenopiles and alveolates. Others do not seem to be related to any molecularly described lineage, and have been proposed to represent novel eukaryotic kingdoms. In order to review the evolutionary importance of this novel high-level eukaryotic diversity critically, and to test the potential technical and analytical pitfalls and limitations of eukaryotic environmental DNA surveys (EES), we analysed 484 environmental SSU rRNA gene sequences, including 81 new sequences from sediments of the small river, the Seymaz (Geneva, Switzerland). Results Based on a detailed screening of an exhaustive alignment of eukaryotic SSU rRNA gene sequences and the phylogenetic re-analysis of previously published environmental sequences using Bayesian methods, our results suggest that the number of novel higher-level taxa revealed by previously published EES was overestimated. Three main sources of errors are responsible for this situation: (1) the presence of undetected chimeric sequences; (2) the misplacement of several fast-evolving sequences; and (3) the incomplete sampling of described, but yet unsequenced eukaryotes. Additionally, EES give a biased view of the diversity present in a given biotope because of the difficult amplification of SSU rRNA genes in some taxonomic groups. Conclusions Environmental DNA surveys undoubtedly contribute to reveal many novel eukaryotic lineages, but there is no clear evidence for a spectacular increase of the diversity at the kingdom level. After re-analysis of previously published data, we found only five candidate lineages of possible novel high-level eukaryotic

  3. Constraints on the upper crustal magma reservoir beneath Yellowstone Caldera inferred from lake-seiche induced strain observations

    USGS Publications Warehouse

    Luttrell, Karen; Mencin, David; Francis, Oliver; Hurwitz, Shaul

    2013-01-01

    Seiche waves in Yellowstone Lake with a ~78-minute period and heights 11 Pa s. These strain observations and models provide independent evidence for the presence of partially molten material in the upper crust, consistent with seismic tomography studies that inferred 10%–30% melt fraction in the upper crust.

  4. Evaluation of rules to distinguish unique female grizzly bears with cubs in Yellowstone

    USGS Publications Warehouse

    Schwartz, C.C.; Haroldson, M.A.; Cherry, S.; Keating, K.A.

    2008-01-01

    The United States Fish and Wildlife Service uses counts of unduplicated female grizzly bears (Ursus arctos) with cubs-of-the-year to establish limits of sustainable mortality in the Greater Yellowstone Ecosystem, USA. Sightings are dustered into observations of unique bears based on an empirically derived rule set. The method has never been tested or verified. To evaluate the rule set, we used data from radiocollared females obtained during 1975-2004 to simulate populations under varying densities, distributions, and sighting frequencies. We tested individual rules and rule-set performance, using custom software to apply the rule-set and duster sightings. Results indicated most rules were violated to some degree, and rule-based dustering consistently underestimated the minimum number of females and total population size derived from a nonparametric estimator (Chao2). We conclude that the current rule set returns conservative estimates, but with minor improvements, counts of unduplicated females-with-cubs can serve as a reasonable index of population size useful for establishing annual mortality limits. For the Yellowstone population, the index is more practical and cost-effective than capture-mark-recapture using either DNA hair snagging or aerial surveys with radiomarked bears. The method has useful application in other ecosystems, but we recommend rules used to distinguish unique females be adapted to local conditions and tested.

  5. Microbial eukaryotic distributions and diversity patterns in a deep-sea methane seep ecosystem.

    PubMed

    Pasulka, Alexis L; Levin, Lisa A; Steele, Josh A; Case, David H; Landry, Michael R; Orphan, Victoria J

    2016-09-01

    Although chemosynthetic ecosystems are known to support diverse assemblages of microorganisms, the ecological and environmental factors that structure microbial eukaryotes (heterotrophic protists and fungi) are poorly characterized. In this study, we examined the geographic, geochemical and ecological factors that influence microbial eukaryotic composition and distribution patterns within Hydrate Ridge, a methane seep ecosystem off the coast of Oregon using a combination of high-throughput 18S rRNA tag sequencing, terminal restriction fragment length polymorphism fingerprinting, and cloning and sequencing of full-length 18S rRNA genes. Microbial eukaryotic composition and diversity varied as a function of substrate (carbonate versus sediment), activity (low activity versus active seep sites), sulfide concentration, and region (North versus South Hydrate Ridge). Sulfide concentration was correlated with changes in microbial eukaryotic composition and richness. This work also revealed the influence of oxygen content in the overlying water column and water depth on microbial eukaryotic composition and diversity, and identified distinct patterns from those previously observed for bacteria, archaea and macrofauna in methane seep ecosystems. Characterizing the structure of microbial eukaryotic communities in response to environmental variability is a key step towards understanding if and how microbial eukaryotes influence seep ecosystem structure and function. © 2016 Society for Applied Microbiology and John Wiley & Sons Ltd.

  6. The phagotrophic origin of eukaryotes and phylogenetic classification of Protozoa.

    PubMed

    Cavalier-Smith, T

    2002-03-01

    Eukaryotes and archaebacteria form the clade neomura and are sisters, as shown decisively by genes fragmented only in archaebacteria and by many sequence trees. This sisterhood refutes all theories that eukaryotes originated by merging an archaebacterium and an alpha-proteobacterium, which also fail to account for numerous features shared specifically by eukaryotes and actinobacteria. I revise the phagotrophy theory of eukaryote origins by arguing that the essentially autogenous origins of most eukaryotic cell properties (phagotrophy, endomembrane system including peroxisomes, cytoskeleton, nucleus, mitosis and sex) partially overlapped and were synergistic with the symbiogenetic origin of mitochondria from an alpha-proteobacterium. These radical innovations occurred in a derivative of the neomuran common ancestor, which itself had evolved immediately prior to the divergence of eukaryotes and archaebacteria by drastic alterations to its eubacterial ancestor, an actinobacterial posibacterium able to make sterols, by replacing murein peptidoglycan by N-linked glycoproteins and a multitude of other shared neomuran novelties. The conversion of the rigid neomuran wall into a flexible surface coat and the associated origin of phagotrophy were instrumental in the evolution of the endomembrane system, cytoskeleton, nuclear organization and division and sexual life-cycles. Cilia evolved not by symbiogenesis but by autogenous specialization of the cytoskeleton. I argue that the ancestral eukaryote was uniciliate with a single centriole (unikont) and a simple centrosomal cone of microtubules, as in the aerobic amoebozoan zooflagellate Phalansterium. I infer the root of the eukaryote tree at the divergence between opisthokonts (animals, Choanozoa, fungi) with a single posterior cilium and all other eukaryotes, designated 'anterokonts' because of the ancestral presence of an anterior cilium. Anterokonts comprise the Amoebozoa, which may be ancestrally unikont, and a vast

  7. Animal migration amid shifting patterns of phenology and predation: lessons from a Yellowstone elk herd.

    PubMed

    Middleton, Arthur D; Kauffman, Matthew J; McWhirter, Douglas E; Cook, John G; Cook, Rachel C; Nelson, Abigail A; Jimenez, Michael D; Klaver, Robert W

    2013-06-01

    Migration is a striking behavioral strategy by which many animals enhance resource acquisition while reducing predation risk. Historically, the demographic benefits of such movements made migration common, but in many taxa the phenomenon is considered globally threatened. Here we describe a long-term decline in the productivity of elk (Cervus elaphus) that migrate through intact wilderness areas to protected summer ranges inside Yellowstone National Park, USA. We attribute this decline to a long-term reduction in the demographic benefits that ungulates typically gain from migration. Among migratory elk, we observed a 21-year, 70% reduction in recruitment and a 4-year, 19% depression in their pregnancy rate largely caused by infrequent reproduction of females that were young or lactating. In contrast, among resident elk, we have recently observed increasing recruitment and a high rate of pregnancy. Landscape-level changes in habitat quality and predation appear to be responsible for the declining productivity of Yellowstone migrants. From 1989 to 2009, migratory elk experienced an increasing rate and shorter duration of green-up coincident with warmer spring-summer temperatures and reduced spring precipitation, also consistent with observations of an unusually severe drought in the region. Migrants are also now exposed to four times as many grizzly bears (Ursus arctos) and wolves (Canis lupus) as resident elk. Both of these restored predators consume migratory elk calves at high rates in the Yellowstone wilderness but are maintained at low densities via lethal management and human disturbance in the year-round habitats of resident elk. Our findings suggest that large-carnivore recovery and drought, operating simultaneously along an elevation gradient, have disproportionately influenced the demography of migratory elk. Many migratory animals travel large geographic distances between their seasonal ranges. Changes in land use and climate that disparately influence

  8. Animal migration amid shifting patterns of phenology and predation: Lessons from a Yellowstone elk herd

    USGS Publications Warehouse

    Middleton, Arthur D.; Kauffman, Matthew J.; McWhirter, Douglas E.; Cook, John G.; Cook, Rachel C.; Nelson, Abigail A.; Jimenez, Michael D.; Klaver, Robert W.

    2013-01-01

    Migration is a striking behavioral strategy by which many animals enhance resource acquisition while reducing predation risk. Historically, the demographic benefits of such movements made migration common, but in many taxa the phenomenon is considered globally threatened. Here we describe a long-term decline in the productivity of elk (Cervus elaphus) that migrate through intact wilderness areas to protected summer ranges inside Yellowstone National Park, USA. We attribute this decline to a long-term reduction in the demographic benefits that ungulates typically gain from migration. Among migratory elk, we observed a 21-year, 70% reduction in recruitment and a 4-year, 19% depression in their pregnancy rate largely caused by infrequent reproduction of females that were young or lactating. In contrast, among resident elk, we have recently observed increasing recruitment and a high rate of pregnancy. Landscape-level changes in habitat quality and predation appear to be responsible for the declining productivity of Yellowstone migrants. From 1989 to 2009, migratory elk experienced an increasing rate and shorter duration of green-up coincident with warmer spring–summer temperatures and reduced spring precipitation, also consistent with observations of an unusually severe drought in the region. Migrants are also now exposed to four times as many grizzly bears (Ursus arctos) and wolves (Canis lupus) as resident elk. Both of these restored predators consume migratory elk calves at high rates in the Yellowstone wilderness but are maintained at low densities via lethal management and human disturbance in the year-round habitats of resident elk. Our findings suggest that large-carnivore recovery and drought, operating simultaneously along an elevation gradient, have disproportionately influenced the demography of migratory elk. Many migratory animals travel large geographic distances between their seasonal ranges. Changes in land use and climate that disparately influence

  9. A congruent phylogenomic signal places eukaryotes within the Archaea.

    PubMed

    Williams, Tom A; Foster, Peter G; Nye, Tom M W; Cox, Cymon J; Embley, T Martin

    2012-12-22

    Determining the relationships among the major groups of cellular life is important for understanding the evolution of biological diversity, but is difficult given the enormous time spans involved. In the textbook 'three domains' tree based on informational genes, eukaryotes and Archaea share a common ancestor to the exclusion of Bacteria. However, some phylogenetic analyses of the same data have placed eukaryotes within the Archaea, as the nearest relatives of different archaeal lineages. We compared the support for these competing hypotheses using sophisticated phylogenetic methods and an improved sampling of archaeal biodiversity. We also employed both new and existing tests of phylogenetic congruence to explore the level of uncertainty and conflict in the data. Our analyses suggested that much of the observed incongruence is weakly supported or associated with poorly fitting evolutionary models. All of our phylogenetic analyses, whether on small subunit and large subunit ribosomal RNA or concatenated protein-coding genes, recovered a monophyletic group containing eukaryotes and the TACK archaeal superphylum comprising the Thaumarchaeota, Aigarchaeota, Crenarchaeota and Korarchaeota. Hence, while our results provide no support for the iconic three-domain tree of life, they are consistent with an extended eocyte hypothesis whereby vital components of the eukaryotic nuclear lineage originated from within the archaeal radiation.

  10. Inorganic phosphate uptake in unicellular eukaryotes.

    PubMed

    Dick, Claudia F; Dos-Santos, André L A; Meyer-Fernandes, José R

    2014-07-01

    Inorganic phosphate (Pi) is an essential nutrient for all organisms. The route of Pi utilization begins with Pi transport across the plasma membrane. Here, we analyzed the gene sequences and compared the biochemical profiles, including kinetic and modulator parameters, of Pi transporters in unicellular eukaryotes. The objective of this review is to evaluate the recent findings regarding Pi uptake mechanisms in microorganisms, such as the fungi Neurospora crassa and Saccharomyces cerevisiae and the parasite protozoans Trypanosoma cruzi, Trypanosoma rangeli, Leishmania infantum and Plasmodium falciparum. Pi uptake is the key step of Pi homeostasis and in the subsequent signaling event in eukaryotic microorganisms. Biochemical and structural studies are important for clarifying mechanisms of Pi homeostasis, as well as Pi sensor and downstream pathways, and raise possibilities for future studies in this field. Copyright © 2014 Elsevier B.V. All rights reserved.

  11. Uniting sex and eukaryote origins in an emerging oxygenic world.

    PubMed

    Gross, Jeferson; Bhattacharya, Debashish

    2010-08-23

    Theories about eukaryote origins (eukaryogenesis) need to provide unified explanations for the emergence of diverse complex features that define this lineage. Models that propose a prokaryote-to-eukaryote transition are gridlocked between the opposing "phagocytosis first" and "mitochondria as seed" paradigms, neither of which fully explain the origins of eukaryote cell complexity. Sex (outcrossing with meiosis) is an example of an elaborate trait not yet satisfactorily addressed in theories about eukaryogenesis. The ancestral nature of meiosis and its dependence on eukaryote cell biology suggest that the emergence of sex and eukaryogenesis were simultaneous and synergic and may be explained by a common selective pressure. We propose that a local rise in oxygen levels, due to cyanobacterial photosynthesis in ancient Archean microenvironments, was highly toxic to the surrounding biota. This selective pressure drove the transformation of an archaeal (archaebacterial) lineage into the first eukaryotes. Key is that oxygen might have acted in synergy with environmental stresses such as ultraviolet (UV) radiation and/or desiccation that resulted in the accumulation of reactive oxygen species (ROS). The emergence of eukaryote features such as the endomembrane system and acquisition of the mitochondrion are posited as strategies to cope with a metabolic crisis in the cell plasma membrane and the accumulation of ROS, respectively. Selective pressure for efficient repair of ROS/UV-damaged DNA drove the evolution of sex, which required cell-cell fusions, cytoskeleton-mediated chromosome movement, and emergence of the nuclear envelope. Our model implies that evolution of sex and eukaryogenesis were inseparable processes. Several types of data can be used to test our hypothesis. These include paleontological predictions, simulation of ancient oxygenic microenvironments, and cell biological experiments with Archaea exposed to ROS and UV stresses. Studies of archaeal conjugation

  12. Fungi from geothermal soils in Yellowstone National Park

    USGS Publications Warehouse

    Redman, R.S.; Litvintseva, A.; Sheehan, K.B.; Henson, J.M.; Rodriguez, R.J.

    1999-01-01

    Geothermal soils near Amphitheater Springs in Yellowstone National Park were characterized by high temperatures (up to 70??C), high heavy metal content, low pH values (down to pH 2.7), sparse vegetation, and limited organic carbon. From these soils we cultured 16 fungal species. Two of these species were thermophilic, and six were thermotolerant. We cultured only three of these species from nearby cool (0 to 22??C) soils. Transect studies revealed that higher numbers of CFUs occurred in and below the root zone of the perennial plant Dichanthelium lanuginosum (hot springs panic grass). The dynamics of fungal CFUs in geothermal soil and nearby nongeothermal soil were investigated for 12 months by examining soil cores and in situ mesocosms. For all of the fungal species studied, the temperature of the soil from which the organisms were cultured corresponded with their optimum axenic growth temperature.

  13. Fungi from Geothermal Soils in Yellowstone National Park

    PubMed Central

    Redman, Regina S.; Litvintseva, Anastassia; Sheehan, Kathy B.; Henson, Joan M.; Rodriguez, Rusty J.

    1999-01-01

    Geothermal soils near Amphitheater Springs in Yellowstone National Park were characterized by high temperatures (up to 70°C), high heavy metal content, low pH values (down to pH 2.7), sparse vegetation, and limited organic carbon. From these soils we cultured 16 fungal species. Two of these species were thermophilic, and six were thermotolerant. We cultured only three of these species from nearby cool (0 to 22°C) soils. Transect studies revealed that higher numbers of CFUs occurred in and below the root zone of the perennial plant Dichanthelium lanuginosum (hot springs panic grass). The dynamics of fungal CFUs in geothermal soil and nearby nongeothermal soil were investigated for 12 months by examining soil cores and in situ mesocosms. For all of the fungal species studied, the temperature of the soil from which the organisms were cultured corresponded with their optimum axenic growth temperature. PMID:10583964

  14. Evolution of DNA Replication Protein Complexes in Eukaryotes and Archaea

    PubMed Central

    Chia, Nicholas; Cann, Isaac; Olsen, Gary J.

    2010-01-01

    Background The replication of DNA in Archaea and eukaryotes requires several ancillary complexes, including proliferating cell nuclear antigen (PCNA), replication factor C (RFC), and the minichromosome maintenance (MCM) complex. Bacterial DNA replication utilizes comparable proteins, but these are distantly related phylogenetically to their archaeal and eukaryotic counterparts at best. Methodology/Principal Findings While the structures of each of the complexes do not differ significantly between the archaeal and eukaryotic versions thereof, the evolutionary dynamic in the two cases does. The number of subunits in each complex is constant across all taxa. However, they vary subtly with regard to composition. In some taxa the subunits are all identical in sequence, while in others some are homologous rather than identical. In the case of eukaryotes, there is no phylogenetic variation in the makeup of each complex—all appear to derive from a common eukaryotic ancestor. This is not the case in Archaea, where the relationship between the subunits within each complex varies taxon-to-taxon. We have performed a detailed phylogenetic analysis of these relationships in order to better understand the gene duplications and divergences that gave rise to the homologous subunits in Archaea. Conclusion/Significance This domain level difference in evolution suggests that different forces have driven the evolution of DNA replication proteins in each of these two domains. In addition, the phylogenies of all three gene families support the distinctiveness of the proposed archaeal phylum Thaumarchaeota. PMID:20532250

  15. Channeling of eukaryotic diacylglycerol into the biosynthesis of plastidial phosphatidylglycerol.

    PubMed

    Fritz, Markus; Lokstein, Heiko; Hackenberg, Dieter; Welti, Ruth; Roth, Mary; Zähringer, Ulrich; Fulda, Martin; Hellmeyer, Wiebke; Ott, Claudia; Wolter, Frank P; Heinz, Ernst

    2007-02-16

    Plastidial glycolipids contain diacylglycerol (DAG) moieties, which are either synthesized in the plastids (prokaryotic lipids) or originate in the extraplastidial compartment (eukaryotic lipids) necessitating their transfer into plastids. In contrast, the only phospholipid in plastids, phosphatidylglycerol (PG), contains exclusively prokaryotic DAG backbones. PG contributes in several ways to the functions of chloroplasts, but it is not known to what extent its prokaryotic nature is required to fulfill these tasks. As a first step toward answering this question, we produced transgenic tobacco plants that contain eukaryotic PG in thylakoids. This was achieved by targeting a bacterial DAG kinase into chloroplasts in which the heterologous enzyme was also incorporated into the envelope fraction. From lipid analysis we conclude that the DAG kinase phosphorylated eukaryotic DAG forming phosphatidic acid, which was converted into PG. This resulted in PG with 2-3 times more eukaryotic than prokaryotic DAG backbones. In the newly formed PG the unique Delta3-trans-double bond, normally confined to 3-trans-hexadecenoic acid, was also found in sn-2-bound cis-unsaturated C18 fatty acids. In addition, a lipidomics technique allowed the characterization of phosphatidic acid, which is assumed to be derived from eukaryotic DAG precursors in the chloroplasts of the transgenic plants. The differences in lipid composition had only minor effects on measured functions of the photosynthetic apparatus, whereas the most obvious phenotype was a significant reduction in growth.

  16. Differential utilization and transformation of sulfur allotropes, μ-S and α-S8, by moderate thermoacidophile Sulfobacillus thermosulfidooxidans.

    PubMed

    Nie, Zhen-yuan; Liu, Hong-chang; Xia, Jin-lan; Zhu, Hong-rui; Ma, Chen-yan; Zheng, Lei; Zhao, Yi-dong; Qiu, Guan-zhou

    2014-10-01

    The utilization of amorphous μ-S and orthorhombic α-S8 by thermoacidophile Sulfobacillus thermosulfidooxidans was firstly investigated in terms of cell growth and sulfur oxidation behavior. The morphology and surface sulfur speciation transformation were evaluated by using scanning electron microscopy (SEM), X-ray diffraction (XRD), Fourier transform-infrared spectroscopy (FT-IR), Raman spectroscopy and sulfur K-edge X-ray absorption near edge structure (XANES) spectroscopy. The results showed that the strain grown on μ-S entered slower (about 1 day later) into the exponential phase, while grew faster in exponential phase and attained higher maximal cell density and lower pH than on α-S8. After bio-corrosion, both sulfur samples were evidently eroded, but only μ-S surface presented much porosity, while α-S8 maintained glabrous. μ-S began to be gradually converted into α-S8 from day 2 when the bacterial cells entered the exponential phase, with a final composition of 62.3% μ-S and 37.7% α-S8 on day 4 at the stationary phase. α-S8 was not found to transform into other species in the experiments with or without bacteria. These data indicated S. thermosulfidooxidans oxidized amorphous μ-S faster than orthorhombic α-S8, but the chain-like μ-S was transformed into cyclic α-S8 by S. thermosulfidooxidans. Copyright © 2014 Institut Pasteur. Published by Elsevier Masson SAS. All rights reserved.

  17. The prokaryotic zinc-finger: structure, function and comparison with the eukaryotic counterpart.

    PubMed

    Malgieri, Gaetano; Palmieri, Maddalena; Russo, Luigi; Fattorusso, Roberto; Pedone, Paolo V; Isernia, Carla

    2015-12-01

    Classical zinc finger (ZF) domains were thought to be confined to the eukaryotic kingdom until the transcriptional regulator Ros protein was identified in Agrobacterium tumefaciens. The Ros Cys2 His2 ZF binds DNA in a peculiar mode and folds in a domain significantly larger than its eukaryotic counterpart consisting of 58 amino acids (the 9-66 region) arranged in a βββαα topology, and stabilized by a conserved, extensive, 15-residue hydrophobic core. The prokaryotic ZF domain, then, shows some intriguing new features that make it interestingly different from its eukaryotic counterpart. This review will focus on the prokaryotic ZFs, summarizing and discussing differences and analogies with the eukaryotic domains and providing important insights into their structure/function relationships. © 2015 FEBS.

  18. Initiation of translation in bacteria by a structured eukaryotic IRES RNA.

    PubMed

    Colussi, Timothy M; Costantino, David A; Zhu, Jianyu; Donohue, John Paul; Korostelev, Andrei A; Jaafar, Zane A; Plank, Terra-Dawn M; Noller, Harry F; Kieft, Jeffrey S

    2015-03-05

    The central dogma of gene expression (DNA to RNA to protein) is universal, but in different domains of life there are fundamental mechanistic differences within this pathway. For example, the canonical molecular signals used to initiate protein synthesis in bacteria and eukaryotes are mutually exclusive. However, the core structures and conformational dynamics of ribosomes that are responsible for the translation steps that take place after initiation are ancient and conserved across the domains of life. We wanted to explore whether an undiscovered RNA-based signal might be able to use these conserved features, bypassing mechanisms specific to each domain of life, and initiate protein synthesis in both bacteria and eukaryotes. Although structured internal ribosome entry site (IRES) RNAs can manipulate ribosomes to initiate translation in eukaryotic cells, an analogous RNA structure-based mechanism has not been observed in bacteria. Here we report our discovery that a eukaryotic viral IRES can initiate translation in live bacteria. We solved the crystal structure of this IRES bound to a bacterial ribosome to 3.8 Å resolution, revealing that despite differences between bacterial and eukaryotic ribosomes this IRES binds directly to both and occupies the space normally used by transfer RNAs. Initiation in both bacteria and eukaryotes depends on the structure of the IRES RNA, but in bacteria this RNA uses a different mechanism that includes a form of ribosome repositioning after initial recruitment. This IRES RNA bridges billions of years of evolutionary divergence and provides an example of an RNA structure-based translation initiation signal capable of operating in two domains of life.

  19. Metabarcoding analysis of eukaryotic microbiota in the gut of HIV-infected patients.

    PubMed

    Hamad, Ibrahim; Abou Abdallah, Rita; Ravaux, Isabelle; Mokhtari, Saadia; Tissot-Dupont, Hervé; Michelle, Caroline; Stein, Andreas; Lagier, Jean-Christophe; Raoult, Didier; Bittar, Fadi

    2018-01-01

    Research on the relationship between changes in the gut microbiota and human disease, including AIDS, is a growing field. However, studies on the eukaryotic component of the intestinal microbiota have just begun and have not yet been conducted in HIV-infected patients. Moreover, eukaryotic community profiling is influenced by the use of different methodologies at each step of culture-independent techniques. Herein, initially, four DNA extraction protocols were compared to test the efficiency of each method in recovering eukaryotic DNA from fecal samples. Our results revealed that recovering eukaryotic components from fecal samples differs significantly among DNA extraction methods. Subsequently, the composition of the intestinal eukaryotic microbiota was evaluated in HIV-infected patients and healthy volunteers through clone sequencing, high-throughput sequencing of nuclear ribosomal internal transcribed spacers 1 (ITS1) and 2 (ITS2) amplicons and real-time PCRs. Our results revealed that not only richness (Chao-1 index) and alpha diversity (Shannon diversity) differ between HIV-infected patients and healthy volunteers, depending on the molecular strategy used, but also the global eukaryotic community composition, with little overlapping taxa found between techniques. Moreover, our results based on cloning libraries and ITS1/ITS2 metabarcoding sequencing showed significant differences in fungal composition between HIV-infected patients and healthy volunteers, but without distinct clusters separating the two groups. Malassezia restricta was significantly more prevalent in fecal samples of HIV-infected patients, according to cloning libraries, whereas operational taxonomic units (OTUs) belonging to Candida albicans and Candida tropicalis were significantly more abundant in fecal samples of HIV-infected patients compared to healthy subjects in both ITS subregions. Finally, real-time PCR showed the presence of Microsporidia, Giardia lamblia, Blastocystis and

  20. Migrations and swimming capabilities of endangered pallid sturgeon (Scaphirhynchus albus) to guide passage designs in the fragmented Yellowstone River

    USGS Publications Warehouse

    Braaten, P. J.; Elliott, Caroline M.; Rhoten, Jason C.; Fuller, D. B.; McElroy, Brandon J.

    2015-01-01

    Fragmentation of the Yellowstone River is hypothesized to preclude recruitment of endangered Scaphirhynchus albus (pallid sturgeon) by impeding upstream spawning migrations and access to upstream spawning areas, thereby limiting the length of free-flowing river required for survival of early life stages. Building on this hypothesis, the reach of the Yellowstone River affected by Intake Diversion Dam (IDD) is targeted for modification. Structures including a rock ramp and by-pass channel have been proposed as restoration alternatives to facilitate passage. Limited information on migrations and swimming capabilities of pallid sturgeon is available to guide engineering design specifications for the proposed structures. Migration behavior, pathways (channel routes used during migrations), and swimming capabilities of free-ranging wild adult pallid sturgeon were examined using radiotelemetry, and complemented with hydraulic data obtained along the migration pathways. Migrations of 12–26% of the telemetered pallid sturgeon population persisted to IDD, but upstream passage over the dam was not detected. Observed migration pathways occurred primarily through main channel habitats; however, migrations through side channels up to 3.9 km in length were documented. The majority of pallid sturgeon used depths of 2.2–3.4 m and mean water velocities of 0.89–1.83 m/s while migrating. Results provide inferences on depths, velocities, and habitat heterogeneity of reaches successfully negotiated by pallid sturgeon that may be used to guide designs for structures facilitating passage at IDD. Passage will provide connectivity to potential upstream spawning areas on the Yellowstone River, thereby increasing the likelihood of recruitment for this endangered species.

  1. Multiple estimates of effective population size for monitoring a long-lived vertebrate: An application to Yellowstone grizzly bears

    USGS Publications Warehouse

    Kamath, Pauline L.; Haroldson, Mark A.; Luikart, Gordon; Paetkau, David; Whitman, Craig L.; van Manen, Frank T.

    2015-01-01

    Effective population size (Ne) is a key parameter for monitoring the genetic health of threatened populations because it reflects a population's evolutionary potential and risk of extinction due to genetic stochasticity. However, its application to wildlife monitoring has been limited because it is difficult to measure in natural populations. The isolated and well-studied population of grizzly bears (Ursus arctos) in the Greater Yellowstone Ecosystem provides a rare opportunity to examine the usefulness of different Ne estimators for monitoring. We genotyped 729 Yellowstone grizzly bears using 20 microsatellites and applied three single-sample estimators to examine contemporary trends in generation interval (GI), effective number of breeders (Nb) and Ne during 1982–2007. We also used multisample methods to estimate variance (NeV) and inbreeding Ne (NeI). Single-sample estimates revealed positive trajectories, with over a fourfold increase in Ne (≈100 to 450) and near doubling of the GI (≈8 to 14) from the 1980s to 2000s. NeV (240–319) and NeI (256) were comparable with the harmonic mean single-sample Ne (213) over the time period. Reanalysing historical data, we found NeV increased from ≈80 in the 1910s–1960s to ≈280 in the contemporary population. The estimated ratio of effective to total census size (Ne/Nc) was stable and high (0.42–0.66) compared to previous brown bear studies. These results support independent demographic evidence for Yellowstone grizzly bear population growth since the 1980s. They further demonstrate how genetic monitoring of Ne can complement demographic-based monitoring of Nc and vital rates, providing a valuable tool for wildlife managers.

  2. Linking rapid magma reservoir assembly and eruption trigger mechanisms at evolved Yellowstone-type supervolcanoes

    USGS Publications Warehouse

    Wotzlaw, J.F.; Bindeman, I.N.; Watts, Kathryn E.; Schmitt, A.K.; Caricchi, L.; Schaltegger, U.

    2014-01-01

    The geological record contains evidence of volcanic eruptions that were as much as two orders of magnitude larger than the most voluminous eruption experienced by modern civilizations, the A.D. 1815 Tambora (Indonesia) eruption. Perhaps nowhere on Earth are deposits of such supereruptions more prominent than in the Snake River Plain–Yellowstone Plateau (SRP-YP) volcanic province (northwest United States). While magmatic activity at Yellowstone is still ongoing, the Heise volcanic field in eastern Idaho represents the youngest complete caldera cycle in the SRP-YP, and thus is particularly instructive for current and future volcanic activity at Yellowstone. The Heise caldera cycle culminated 4.5 Ma ago in the eruption of the ∼1800 km3 Kilgore Tuff. Accessory zircons in the Kilgore Tuff display significant intercrystalline and intracrystalline oxygen isotopic heterogeneity, and the vast majority are 18O depleted. This suggests that zircons crystallized from isotopically distinct magma batches that were generated by remelting of subcaldera silicic rocks previously altered by low-δ18O meteoric-hydrothermal fluids. Prior to eruption these magma batches were assembled and homogenized into a single voluminous reservoir. U-Pb geochronology of isotopically diverse zircons using chemical abrasion–isotope dilution–thermal ionization mass spectrometry yielded indistinguishable crystallization ages with a weighted mean 206Pb/238U date of 4.4876 ± 0.0023 Ma (MSWD = 1.5; n = 24). These zircon crystallization ages are also indistinguishable from the sanidine 40Ar/39Ar dates, and thus zircons crystallized close to eruption. This requires that shallow crustal melting, assembly of isolated batches into a supervolcanic magma reservoir, homogenization, and eruption occurred extremely rapidly, within the resolution of our geochronology (103–104 yr). The crystal-scale image of the reservoir configuration, with several isolated magma batches, is very similar to the

  3. Genetic exchange in eukaryotes through horizontal transfer: connected by the mobilome.

    PubMed

    Wallau, Gabriel Luz; Vieira, Cristina; Loreto, Élgion Lúcio Silva

    2018-01-01

    All living species contain genetic information that was once shared by their common ancestor. DNA is being inherited through generations by vertical transmission (VT) from parents to offspring and from ancestor to descendant species. This process was considered the sole pathway by which biological entities exchange inheritable information. However, Horizontal Transfer (HT), the exchange of genetic information by other means than parents to offspring, was discovered in prokaryotes along with strong evidence showing that it is a very important process by which prokaryotes acquire new genes. For some time now, it has been a scientific consensus that HT events were rare and non-relevant for evolution of eukaryotic species, but there is growing evidence supporting that HT is an important and frequent phenomenon in eukaryotes as well. Here, we will discuss the latest findings regarding HT among eukaryotes, mainly HT of transposons (HTT), establishing HTT once and for all as an important phenomenon that should be taken into consideration to fully understand eukaryotes genome evolution. In addition, we will discuss the latest development methods to detect such events in a broader scale and highlight the new approaches which should be pursued by researchers to fill the knowledge gaps regarding HTT among eukaryotes.

  4. Eukaryotic ribosome display with in situ DNA recovery.

    PubMed

    He, Mingyue; Edwards, Bryan M; Kastelic, Damjana; Taussig, Michael J

    2012-01-01

    Ribosome display is a cell-free display technology for in vitro selection and optimisation of proteins from large diversified libraries. It operates through the formation of stable protein-ribosome-mRNA (PRM) complexes and selection of ligand-binding proteins, followed by DNA recovery from the selected genetic information. Both prokaryotic and eukaryotic ribosome display systems have been developed. In this chapter, we describe the eukaryotic rabbit reticulocyte method in which a distinct in situ single-primer RT-PCR procedure is used to recover DNA from the selected PRM complexes without the need for prior disruption of the ribosome.

  5. Phylogenetic diversity and in situ detection of eukaryotes in anaerobic sludge digesters.

    PubMed

    Matsubayashi, Miri; Shimada, Yusuke; Li, Yu-You; Harada, Hideki; Kubota, Kengo

    2017-01-01

    Eukaryotic communities in aerobic wastewater treatment processes are well characterized, but little is known about them in anaerobic processes. In this study, abundance, diversity and morphology of eukaryotes in anaerobic sludge digesters were investigated by quantitative real-time PCR (qPCR), 18S rRNA gene clone library construction and catalyzed reporter deposition-fluorescence in situ hybridization (CARD-FISH). Samples were taken from four different anaerobic sludge digesters in Japan. Results of qPCR of rRNA genes revealed that Eukarya accounted from 0.1% to 1.4% of the total number of microbial rRNA gene copy numbers. The phylogenetic affiliations of a total of 251 clones were Fungi, Alveolata, Viridiplantae, Amoebozoa, Rhizaria, Stramenopiles and Metazoa. Eighty-five percent of the clones showed less than 97.0% sequence identity to described eukaryotes, indicating most of the eukaryotes in anaerobic sludge digesters are largely unknown. Clones belonging to the uncultured lineage LKM11 in Cryptomycota of Fungi were most abundant in anaerobic sludge, which accounted for 50% of the total clones. The most dominant OTU in each library belonged to either the LKM11 lineage or the uncultured lineage A31 in Alveolata. Principal coordinate analysis indicated that the eukaryotic and prokaryotic community structures were related. The detection of anaerobic eukaryotes, including the members of the LKM11 and A31 lineages in anaerobic sludge digesters, by CARD-FISH revealed their sizes in the range of 2-8 μm. The diverse and uncultured eukaryotes in the LKM11 and the A31 lineages are common and ecologically relevant members in anaerobic sludge digester.

  6. Characterization of novel bacteriochlorophyll-a-containing red filaments from alkaline hot springs in Yellowstone National Park.

    PubMed

    Boomer, S M; Pierson, B K; Austinhirst, R; Castenholz, R W

    2000-09-01

    Novel red, filamentous, gliding bacteria formed deep red layers in several alkaline hot springs in Yellowstone National Park. Filaments contained densely layered intracellular membranes and bacteriochlorophyll a. The in vivo absorption spectrum of the red layer filaments was distinct from other phototrophs, with unusual bacteriochlorophyll a signature peaks in the near-infrared (IR) region (807 nm and 911 nm). These absorption peaks were similar to the wavelengths penetrating to the red layer of the mats as measured with in situ spectroradiometry. The filaments also demonstrated maximal photosynthetic uptake of radiolabeled carbon sources at these wavelengths. The red layer filaments displayed anoxygenic photoheterotrophy, as evidenced by the specific incorporation of acetate, not bicarbonate, and by the absence of oxygen production. Photoheterotrophy was unaffected by sulfide and oxygen, but was diminished by high-intensity visible light. Near-IR radiation supported photoheterotrophy. Morphologically and spectrally similar filaments were observed in several springs in Yellowstone National Park, including Octopus Spring. Taken together, these data suggest that the red layer filaments are most similar to the photoheterotroph, Heliothrix oregonensis. Notable differences include mat position and coloration, absorption spectra, and prominent intracellular membranes.

  7. Mitochondrial uncoupling proteins in unicellular eukaryotes.

    PubMed

    Jarmuszkiewicz, Wieslawa; Woyda-Ploszczyca, Andrzej; Antos-Krzeminska, Nina; Sluse, Francis E

    2010-01-01

    Uncoupling proteins (UCPs) are members of the mitochondrial anion carrier protein family that are present in the mitochondrial inner membrane and mediate free fatty acid (FFA)-activated, purine nucleotide (PN)-inhibited proton conductance. Since 1999, the presence of UCPs has been demonstrated in some non-photosynthesising unicellular eukaryotes, including amoeboid and parasite protists, as well as in non-fermentative yeast and filamentous fungi. In the mitochondria of these organisms, UCP activity is revealed upon FFA-induced, PN-inhibited stimulation of resting respiration and a decrease in membrane potential, which are accompanied by a decrease in membranous ubiquinone (Q) reduction level. UCPs in unicellular eukaryotes are able to divert energy from oxidative phosphorylation and thus compete for a proton electrochemical gradient with ATP synthase. Our recent work indicates that membranous Q is a metabolic sensor that might utilise its redox state to release the PN inhibition of UCP-mediated mitochondrial uncoupling under conditions of phosphorylation and resting respiration. The action of reduced Q (QH2) could allow higher or complete activation of UCP. As this regulatory feature was demonstrated for microorganism UCPs (A. castellanii UCP), plant and mammalian UCP1 analogues, and UCP1 in brown adipose tissue, the process could involve all UCPs. Here, we discuss the functional connection and physiological role of UCP and alternative oxidase, two main energy-dissipating systems in the plant-type mitochondrial respiratory chain of unicellular eukaryotes, including the control of cellular energy balance as well as preventive action against the production of reactive oxygen species. Copyright © 2009 Elsevier B.V. All rights reserved.

  8. Towards New Antifolates Targeting Eukaryotic Opportunistic Infections

    DOE Office of Scientific and Technical Information (OSTI.GOV)

    Liu, J.; Bolstad, D; Bolstad, E

    2009-01-01

    Trimethoprim, an antifolate commonly prescribed in combination with sulfamethoxazole, potently inhibits several prokaryotic species of dihydrofolate reductase (DHFR). However, several eukaryotic pathogenic organisms are resistant to trimethoprim, preventing its effective use as a therapeutic for those infections. We have been building a program to reengineer trimethoprim to more potently and selectively inhibit eukaryotic species of DHFR as a viable strategy for new drug discovery targeting several opportunistic pathogens. We have developed a series of compounds that exhibit potent and selective inhibition of DHFR from the parasitic protozoa Cryptosporidium and Toxoplasma as well as the fungus Candida glabrata. A comparison ofmore » the structures of DHFR from the fungal species Candida glabrata and Pneumocystis suggests that the compounds may also potently inhibit Pneumocystis DHFR.« less

  9. Evaluation of ML-MC as a Depth Discriminant in Yellowstone, USA and Italy

    NASA Astrophysics Data System (ADS)

    Li, Z.; Koper, K. D.; Burlacu, R.; Sun, D.; D'Amico, S.

    2017-12-01

    Recent work has shown that the difference between two magnitude scales, ML (local Richter magnitude) and MC (coda/duration magnitude), acts as a depth discriminant in Utah. Shallow seismic sources, such as mining induced earthquakes and explosions, have strongly negative ML-MC values, while deeper tectonic earthquakes have ML-MC values near zero. These observations imply that ML-MC might be effective at discriminating small explosions from deeper natural earthquakes at local distances. In this work, we examine seismicity catalogs for the Yellowstone region and Italy to determine if ML-MCacts as a depth discriminant in these regions as well. We identified 4,780 earthquakes that occurred in the Yellowstone region between Sept. 24, 1994 and March 31, 2017 for which both ML and MC were calculated. The ML-MC distribution is well described by a Gaussian function with a mean of 0.102 and a standard deviation of 0.326. We selected a subset of these events with accurate depths and determined mean ML-MC values in various depth bins. An event depth was considered accurate if the formal depth error was less than 2 km and either (1) the nearest station was within one focal depth or (2) the distance to the nearest station was smaller than the bin size. We find that ML-MC decreases as event depths become shallower than about 10 km. Similar to the results for Utah, the decrease is statistically significant and is robust with respect to small changes in bin size and the criteria used to define accurate depths. We used a similar process to evaluate whether ML-MC was a function of source depth for 63,555 earthquakes that occurred between April 16, 2005 and April 30, 2012 in Italy. The ML-MC values in Italy are also well described by a normal distribution, with a mean of -0.477 and standard deviation of 0.315. We again find a statistically significant decrease in ML-MC for shallow earthquakes. In contrast to the Yellowstone results, for Italy ML-MC decreases at a nearly constant rate

  10. Wolf-bison interactions in Yellowstone National Park

    USGS Publications Warehouse

    Smith, Douglas W.; Mech, L. David; Meagher, Mary; Clark, Wendy E.; Jaffe, Rosemary; Phillips, Michael K.; Mack, John A.

    2000-01-01

    We studied interactions of reintroduced wolves (Canis lupus) with bison (Bison bison) in Yellowstone National Park. Only 2 of 41 wolves in this study had been exposed to bison before their translocation. Wolves were more successful killing elk (Cervus elaphus) than bison, and elk were more abundant than bison, so elk were the primary prey of wolves. Except for a lone emaciated bison calf killed by 8 1-year-old wolves 21 days after their release, the 1st documented kill occurred 25 months after wolves were released. Fourteen bison kills were documented from April 1995 through March 1999. All kills were made in late winter when bison were vulnerable because of poor condition or of bison that were injured or young. Wolves learned to kill bison and killed more bison where elk were absent or scarce. We predict that wolves that have learned to kill bison will kill them more regularly, at least in spring. The results of this study indicate how adaptable wolves are at killing prey species new to them.

  11. Reproductive development in the sicklefin chub in the Missouri and Lower Yellowstone Rivers

    USGS Publications Warehouse

    Dieterman, Douglas J.; Roberts, Eric; Braaten, Patrick J.; Galat, David L.

    2006-01-01

    We describe aspects of sicklefin chub (Macrhybopsis meeki) reproductive development from three study areas encompassing greater than 2,700 km of the Missouri and Lower Yellowstone rivers. The sicklefin chub was collected between late July and early October in 1996 and 1997. A total of 193 sicklefin chub was collected and examined for reproductive characteristics. Twenty-nine sicklefin chub were found to be reproductively mature females. Some sicklefin chub matured at age 2, but most matured at age 3 and all matured by age 4. Females first became mature at 70 to 79 mm total length (TL) in the Upper Missouri River reach in central Montana, 80 to 89 mm TL in the Missouri and Lower Yellowstone rivers in eastern Montana-western North Dakota, and 90 to 99 mm TL in the lower Missouri River in Nebraska, Iowa, Kansas, and Missouri. Gonad mass of gravid females averaged 6.9% of total body mass and ranged from 1.7 to 13.5%. Total number of oocytes per female, ranged from 7 to 1,561. Reproductive development of the sicklefin chub appeared to be group synchronous or synchronous indicating multiple spawnings during a spawning season. This variability in spawning mode required cautious interpretation of gonadosomatic index values and oocyte counts as estimates of total fecundity, because some females might have released a cohort of oocytes prior to their capture.

  12. Eukaryotic acquisition of a bacterial operon

    USDA-ARS?s Scientific Manuscript database

    The yeast Saccharomyces cerevisiae is one of the champions of basic biomedical research due to its compact eukaryotic genome and ease of experimental manipulation. Despite these immense strengths, its impact on understanding the genetic basis of natural phenotypic variation has been limited by strai...

  13. Quantitative prediction of shrimp disease incidence via the profiles of gut eukaryotic microbiota.

    PubMed

    Xiong, Jinbo; Yu, Weina; Dai, Wenfang; Zhang, Jinjie; Qiu, Qiongfen; Ou, Changrong

    2018-04-01

    One common notion is emerging that gut eukaryotes are commensal or beneficial, rather than detrimental. To date, however, surprisingly few studies have been taken to discern the factors that govern the assembly of gut eukaryotes, despite growing interest in the dysbiosis of gut microbiota-disease relationship. Herein, we firstly explored how the gut eukaryotic microbiotas were assembled over shrimp postlarval to adult stages and a disease progression. The gut eukaryotic communities changed markedly as healthy shrimp aged, and converged toward an adult-microbiota configuration. However, the adult-like stability was distorted by disease exacerbation. A null model untangled that the deterministic processes that governed the gut eukaryotic assembly tended to be more important over healthy shrimp development, whereas this trend was inverted as the disease progressed. After ruling out the baseline of gut eukaryotes over shrimp ages, we identified disease-discriminatory taxa (species level afforded the highest accuracy of prediction) that characteristic of shrimp health status. The profiles of these taxa contributed an overall 92.4% accuracy in predicting shrimp health status. Notably, this model can accurately diagnose the onset of shrimp disease. Interspecies interaction analysis depicted how the disease-discriminatory taxa interacted with one another in sustaining shrimp health. Taken together, our findings offer novel insights into the underlying ecological processes that govern the assembly of gut eukaryotes over shrimp postlarval to adult stages and a disease progression. Intriguingly, the established model can quantitatively and accurately predict the incidences of shrimp disease.

  14. Contrasting perspectives on the Lava Creek Tuff eruption, Yellowstone, from new U-Pb and 40Ar/39Ar age determinations

    NASA Astrophysics Data System (ADS)

    Wilson, Colin J. N.; Stelten, Mark E.; Lowenstern, Jacob B.

    2018-06-01

    The youngest major caldera-forming event at Yellowstone was the 630-ka eruption of the Lava Creek Tuff. The tuff as mapped consists of two major ignimbrite packages (members A and B), linked to widespread coeval fall deposits and formation of the Yellowstone Caldera. Subsequent activity included emplacement of numerous rhyolite flows and domes, and development of two structurally resurgent domes (Mallard Lake and Sour Creek) that accommodate strain due to continual uplift/subsidence cycles. Uplifted lithologies previously mapped on and adjacent to Sour Creek dome were thought to include the 2.08-Ma Huckleberry Ridge Tuff, cropping out beneath Lava Creek Tuff members A and B. Mapped outcrops of this Huckleberry Ridge Tuff material were sampled as welded ignimbrite (sample YR345) on Sour Creek dome, and at nearby Bog Creek as welded ignimbrite (YR311) underlain by an indurated lithic lag breccia containing blocks of another welded ignimbrite (YR324). Zircon near-rim U-Pb analyses from these samples yield weighted mean ages of 661 ± 13 ka (YR345: 95% confidence), 655 ± 11 ka (YR311), and 664 ± 15 ka (YR324) (combined weighted mean of 658.8 ± 6.6 ka). We also studied two samples of ignimbrite previously mapped as Huckleberry Ridge Tuff on the northeastern perimeter of the Yellowstone Caldera, 12 km ENE of Sour Creek dome. Sanidines from these samples yield 40Ar/39Ar age estimates of 634.5 ± 6.8 ka (8YC-358) and 630.9 ± 4.1 ka (8YC-359). These age data show that all these units represent previously unrecognized parts of the Lava Creek Tuff and do not have any relationship to the Huckleberry Ridge Tuff. Our observations and data imply that the Lava Creek eruption was more complex than is currently assumed, incorporating two tuff units additional to those currently mapped, and which themselves are separated by a time break sufficient for cooling and some reworking. The presence of a lag breccia suggests that a source vent lay nearby (< 3 km) for some of the tuffs

  15. The Roles of the Yellowstone Hotspot and Crustal Assimilation in Generating Pleistocene-Holocene Basalts on the Eastern Snake River Plain

    NASA Astrophysics Data System (ADS)

    Mintz, H.; Chadwick, J.

    2017-12-01

    The southwest motion of the North American plate across the Yellowstone hotspot created a chain of age-progressive rhyolitic calderas over the past 16 myr. in southern Idaho, U.S. The focus of Yellowstone activity now resides in northwest Wyoming, but basaltic volcanism has continued in its wake in southern Idaho on the eastern Snake River Plain (ESRP). These younger basaltic lavas are not age progressive and have buried the Yellowstone rhyolites on the ESRP. The ultimate source of the basalts is commonly ascribed to the passage or presence of the hotspot. However, the mechanisms involved, and the relative roles of the hotspot, other mantle sources, and the North American crust in generating the ESRP basalts remain unclear and have been the subject of recent geochemical and isotopic studies. In this study, the role of crustal assimilation is addressed by analyzing the chemical and isotopic characteristics of some of the youngest Pleistocene-Holocene tholeiitic volcanic fields on the ESRP, which were erupted through varying thicknesses of continental crust. Samples were analyzed from the Hell's Half Acre flow (5,200 years old; all dates Kuntz et al., 1986, 1994), Cerro Grande flow (13,380 years), and Black Butte Crater (a.k.a. Shoshone) flow (10,130 years), which were erupted at distances from between about 200 to 300 km from the current location of the hotspot. The crust of the ESRP thins from northeast to southwest, from about 47 km at the Hells Half Acre flow to 40 km at the Black Butte Crater flow, a thickness difference of about 15%. The apparently similar tectonic and magmatic environments of the three sampled flows suggest the crustal thickness variation may be a primary influence on the magnitude of assimilation and therefore the isotopic characteristics of the lavas. The goal of this work is to constrain the relative role of assimilation and to understand the source(s) of the magmas and the Yellowstone hotspot contribution. Major elements, trace elements

  16. Mechanisms and regulation of DNA replication initiation in eukaryotes.

    PubMed

    Parker, Matthew W; Botchan, Michael R; Berger, James M

    2017-04-01

    Cellular DNA replication is initiated through the action of multiprotein complexes that recognize replication start sites in the chromosome (termed origins) and facilitate duplex DNA melting within these regions. In a typical cell cycle, initiation occurs only once per origin and each round of replication is tightly coupled to cell division. To avoid aberrant origin firing and re-replication, eukaryotes tightly regulate two events in the initiation process: loading of the replicative helicase, MCM2-7, onto chromatin by the origin recognition complex (ORC), and subsequent activation of the helicase by its incorporation into a complex known as the CMG. Recent work has begun to reveal the details of an orchestrated and sequential exchange of initiation factors on DNA that give rise to a replication-competent complex, the replisome. Here, we review the molecular mechanisms that underpin eukaryotic DNA replication initiation - from selecting replication start sites to replicative helicase loading and activation - and describe how these events are often distinctly regulated across different eukaryotic model organisms.

  17. Aggregative multicellularity evolved independently in the eukaryotic supergroup Rhizaria.

    PubMed

    Brown, Matthew W; Kolisko, Martin; Silberman, Jeffrey D; Roger, Andrew J

    2012-06-19

    Multicellular forms of life have evolved many times, independently giving rise to a diversity of organisms such as animals, plants, and fungi that together comprise the visible biosphere. Yet multicellular life is far more widespread among eukaryotes than just these three lineages. A particularly common form of multicellularity is a social aggregative fruiting lifestyle whereby individual cells associate to form a "fungus-like" sorocarp. This complex developmental process that requires the interaction of thousands of cells working in concert was made famous by the "cellular slime mold"Dictyostelium discoideum, which became an important model organism. Although sorocarpic protistan lineages have been identified in five of the major eukaryote groups, the ubiquitous and globally distributed species Guttulinopsis vulgaris has eluded proper classification. Here we demonstrate, by phylogenomic analyses of a 159-protein data set, that G. vulgaris is a member of Rhizaria and is thus the first member of this eukaryote supergroup known to be capable of aggregative multicellularity. Copyright © 2012 Elsevier Ltd. All rights reserved.

  18. Exaptive origins of regulated mRNA decay in eukaryotes

    PubMed Central

    Hamid, Fursham M.

    2016-01-01

    Eukaryotic gene expression is extensively controlled at the level of mRNA stability and the mechanisms underlying this regulation are markedly different from their archaeal and bacterial counterparts. We propose that two such mechanisms, nonsense‐mediated decay (NMD) and motif‐specific transcript destabilization by CCCH‐type zinc finger RNA‐binding proteins, originated as a part of cellular defense against RNA pathogens. These branches of the mRNA turnover pathway might have been used by primeval eukaryotes alongside RNA interference to distinguish their own messages from those of RNA viruses and retrotransposable elements. We further hypothesize that the subsequent advent of “professional” innate and adaptive immunity systems allowed NMD and the motif‐triggered mechanisms to be efficiently repurposed for regulation of endogenous cellular transcripts. This scenario explains the rapid emergence of archetypical mRNA destabilization pathways in eukaryotes and argues that other aspects of post‐transcriptional gene regulation in this lineage might have been derived through a similar exaptation route. PMID:27438915

  19. The Teton-Yellowstone Tornado of 21 July 1987

    NASA Technical Reports Server (NTRS)

    Fujita, T. Theodore

    1989-01-01

    The Teton-Yellowstone Tornado, rated F4, crossed the Continental Divide at 3070 m, leaving behind a damage swath 39.2-km long and 2.5-km wide. A detailed damage analysis by using stereo-pair and color photos revealed the existence of four spinup swirl marks and 72 microburst outflows inside the damage area. The tornado was spawned by a mesocyclone that formed at the intersection of a mesohigh boundary and a warm front. The parent cloud of the tornado, tracked on eight infrared-temperature maps from GOES East and West, moved at 25 m s-1 and the number of cold temperature pixels below -60 C reached a distinct peak during the tornado time. Identified and tracked also are two warm spots enclosed inside the cold anvil cloud. On the basis of their identity and movement, an attempt was made to explain the cause of these spots as being the stratospheric cirrus clouds.

  20. What can we infer about the origin of sex in early eukaryotes?

    PubMed Central

    2016-01-01

    Current analysis shows that the last eukaryotic common ancestor (LECA) was capable of full meiotic sex. The original eukaryotic life cycle can probably be described as clonal, interrupted by episodic sex triggered by external or internal stressors. The cycle could have started in a highly flexible form, with the interruption of either diploid or haploid clonal growth determined by stress signals only. Eukaryotic sex most likely evolved in response to a high mutation rate, arising from the uptake of the endosymbiont, as this (proto) mitochondrion generated internal reactive oxygen species. This is consistent with the likely development of full meiotic sex from a diverse set of existing archaeal (the host of the endosymbiont) repair and signalling mechanisms. Meiotic sex could thus have been one of the fruits of symbiogenesis at the basis of eukaryotic origins: a product of the merger by which eukaryotic cells arose. Symbiogenesis also explains the large-scale migration of organellar DNA to the nucleus. I also discuss aspects of uniparental mitochondrial inheritance and mitonuclear interactions in the light of the previous analysis. This article is part of the themed issue ‘Weird sex: the underappreciated diversity of sexual reproduction’. PMID:27619694

  1. What can we infer about the origin of sex in early eukaryotes?

    PubMed

    Speijer, Dave

    2016-10-19

    Current analysis shows that the last eukaryotic common ancestor (LECA) was capable of full meiotic sex. The original eukaryotic life cycle can probably be described as clonal, interrupted by episodic sex triggered by external or internal stressors. The cycle could have started in a highly flexible form, with the interruption of either diploid or haploid clonal growth determined by stress signals only. Eukaryotic sex most likely evolved in response to a high mutation rate, arising from the uptake of the endosymbiont, as this (proto) mitochondrion generated internal reactive oxygen species. This is consistent with the likely development of full meiotic sex from a diverse set of existing archaeal (the host of the endosymbiont) repair and signalling mechanisms. Meiotic sex could thus have been one of the fruits of symbiogenesis at the basis of eukaryotic origins: a product of the merger by which eukaryotic cells arose. Symbiogenesis also explains the large-scale migration of organellar DNA to the nucleus. I also discuss aspects of uniparental mitochondrial inheritance and mitonuclear interactions in the light of the previous analysis.This article is part of the themed issue 'Weird sex: the underappreciated diversity of sexual reproduction'. © 2016 The Author(s).

  2. Comparison of a Riverine Waterborne Transport and Dispersion Model and Yellowstone River Dye Releases

    DTIC Science & Technology

    2015-01-01

    UNCLASSIFIED I N S T I T U T E F O R D E F E N S E A N A L Y S E S Comparison of a Riverine Waterborne Transport ...F E N S E A N A L Y S E S IDA Document D-5330 Comparison of a Riverine Waterborne Transport and Dispersion Model and Yellowstone...tool for predicting waterborne transport and dispersion of hazardous materials. In a preliminary analysis, IDA reviewed the code’s technical

  3. The architecture of a eukaryotic replisome

    DOE PAGES

    Sun, Jingchuan; Yuan, Zuanning; Shi, Yi; ...

    2015-11-02

    At the eukaryotic DNA replication fork, it is widely believed that the Cdc45–Mcm2–7–GINS (CMG) helicase is positioned in front to unwind DNA and that DNA polymerases trail behind the helicase. Here we used single-particle EM to directly image a Saccharomyces cerevisiae replisome. Contrary to expectations, the leading strand Pol ε is positioned ahead of CMG helicase, whereas Ctf4 and the lagging-strand polymerase (Pol) α–primase are behind the helicase. This unexpected architecture indicates that the leading-strand DNA travels a long distance before reaching Pol ε, first threading through the Mcm2–7 ring and then making a U-turn at the bottom and reachingmore » Pol ε at the top of CMG. Lastly, our work reveals an unexpected configuration of the eukaryotic replisome, suggests possible reasons for this architecture and provides a basis for further structural and biochemical replisome studies.« less

  4. The Iron Metallome in Eukaryotic Organisms

    PubMed Central

    Dlouhy, Adrienne C.; Outten, Caryn E.

    2013-01-01

    This chapter is focused on the iron metallome in eukaryotes at the cellular and subcellular level, including properties, utilization in metalloproteins, trafficking, storage, and regulation of these processes. Studies in the model eukaryote Saccharomyces cerevisiae and mammalian cells will be highlighted. The discussion of iron properties will center on the speciation and localization of intracellular iron as well as the cellular and molecular mechanisms for coping with both low iron bioavailability and iron toxicity. The section on iron metalloproteins will emphasize heme, iron-sulfur cluster, and non-heme iron centers, particularly their cellular roles and mechanisms of assembly. The section on iron uptake, trafficking, and storage will compare methods used by yeast and mammalian cells to import iron, how this iron is brought into various organelles, and types of iron storage proteins. Regulation of these processes will be compared between yeast and mammalian cells at the transcriptional, post-transcriptional, and post-translational levels. PMID:23595675

  5. The early evolution of eukaryotes - A geological perspective

    NASA Technical Reports Server (NTRS)

    Knoll, Andrew H.

    1992-01-01

    This paper examines the goodness of fit between patterns of biological and environmental history implied by molecular phylogenies of eukaryotic organisms and the geological records of early eukaryote evolution. It was found that Precambrian geological records show evidence that episodic increases in biological diversity roughly coincided with episodic environmental changes and by sharp increases in atmospheric oxygen concentrations which significantly changed the earth surface environments. Although the goodness of fit among physical and biological changes is gratifyingly high, the records of these changes do not always coincide in time. The additional information in these fields that is needed for complete integration of geological and phylogenic records is suggested.

  6. Dike emplacement and the birth of the Yellowstone hotspot, western USA

    NASA Astrophysics Data System (ADS)

    Glen, J. M.; Ponce, D. A.; Nomade, S.; John, D. A.

    2003-04-01

    The birth of the Yellowstone hotspot in middle Miocene time was marked by extensive flood basalt volcanism. Prominent aeromagnetic anomalies (referred to collectively as the Northern Nevada rifts), extending hundreds of kilometers across Nevada, are thought to represent dike swarms injected at the time of flood volcanism. Until now, however, dikes from only one of these anomalies (eastern) have been documented, sampled, and dated (40Ar/ 39Ar ages range from 15.4 +/-0.2 to 16.7 +/-0.5Ma; John et al., 2000, ages recalculated using the FCS standard age of 28.02 +/-0.28Ma). We present new paleomagnetic data and an 40Ar/ 39Ar age of 16.6 +/-0.3Ma for a mafic dike suggesting that all the anomalies likely originate from the same mid-Miocene fracturing event. The magnetic anomalies, together with the trends of dike swarms, faults, and fold axes produce a radiating pattern that converges on a point near the Oregon-Idaho boarder. We speculate that this pattern formed by stresses imposed by the impact of the Yellowstone hotspot. Glen and Ponce (2002) propose a simple stress model to account for this fracture pattern that consists of a point source of stress at the base of the crust and a regional stress field aligned with the presumed middle Miocene stress direction. Overlapping point and regional stresses result in stress trajectories that form a radiating pattern near the point source (i.e., hotspot). Far from the influence of the point stress, however, stress trajectories verge towards the NNW-trending regional stress direction (i.e., plate boundary stresses), similar to the pattern of dike swarm traces. Glen and Ponce, 2002, Geology, 30, 7, 647-650 John et al., 2000, Geol. Soc. Nev. Sym. Proc., May 15-18, 2000, 127-154

  7. Cougar survival and source-sink structure on Greater Yellowstone's Northern Range

    USGS Publications Warehouse

    Ruth, T.K.; Haroldson, M.A.; Murphy, K.M.; Buotte, P.C.; Hornocker, M.G.; Quigley, H.B.

    2011-01-01

    We studied survival and causes of mortality of radiocollared cougars (Puma concolor) on the Greater Yellowstone Northern Range (GYNR) prior to (1987–1994) and after wolf (Canis lupus) reintroduction (1998–2005) and evaluated temporal, spatial, and environmental factors that explain variation in adult, subadult, and kitten survival. Using Program MARK and multimodel inference, we modeled cougar survival based on demographic status, season, and landscape attributes. Our best models for adult and independent subadults indicated that females survived better than males and survival increased with age until cougars reached older ages. Lower elevations and increasing density of roads, particularly in areas open to cougar hunting north of Yellowstone National Park (YNP), increased mortality risks for cougars on the GYNR. Indices of ungulate biomass, cougar and wolf population size, winter severity, rainfall, and individual characteristics such as the presence of dependent young, age class, and use of Park or Wilderness were not important predictors of survival. Kitten survival increased with age, was lower during winter, increased with increasing minimum estimates of elk calf biomass, and increased with increasing density of adult male cougars. Using our best model, we mapped adult cougar survival on the GYNR landscape. Results of receiver operating characteristic (ROC) analysis indicated a good model fit for both female (area under the curve [AUC] = 0.81, 95%CI = 0.70–0.92, n = 35 locations) and male cougars (AUC = 0.84, 95%CI = 0.74–0.94, n = 49 locations) relative to hunter harvest locations in our study area. Using minimum estimates of survival necessary to sustain the study population, we developed a source-sink surface and we identify several measures that resource management agencies can take to enhance cougar population management based on a source-sink strategy.

  8. Hydrothermal disturbances at the Norris Geyser Basin, Yellowstone National Park (USA) in 2003

    NASA Astrophysics Data System (ADS)

    Lowenstern, J. B.; Heasler, H.; Smith, R. B.

    2003-12-01

    The Norris Geyser Basin in north-central Yellowstone National Park (YNP) experienced a series of notable changes during 2003, including formation of new hot springs and fumaroles, renewed activity of dormant geysers and elevated ground temperatures. This abstract provides a short synopsis of the new hydrothermal activity. In 2000, Yellowstone's tallest geyser, Steamboat, erupted after a dormant period of nearly 9 years. It erupted twice in 2002 and then again on 26 March and 27 April 2003. Surges in flux of thermal water preceding the eruptions (preplay) were recorded by a couplet of temperature data loggers placed in the outlet stream. The data indicated pulses of water flow with 1 and ~3 day intervals. On 10 July 2003, a new thermal feature was reported just west of Nymph Lake, ~ 3.5 km northwest of the Norris Museum. A linear series of vigorous fumaroles, about 75 m long had formed in a forested area, ~ 200 m up a hill on the lake's west shore. Fine particles of rock and mineral fragments coated nearby vegetation. Fumarole temperatures were around the local boiling temperature of water (92° C). After two months, somewhat reduced steam emission was accompanied by discharge of ~ 3-10 gallons per minute of near-neutral thermal water. Trees within 4 meters of the lineament were dead and were being slowly combusted. Porkchop Geyser in Norris' Back Basin had been dormant since it exploded in 1989, littering the nearby area with boulders up to over 1 m in diameter. Since that time, its water had remained well below the boiling temperature of water. From 1 April through 1 July `03, the temperature of waters in Porkchop's vent increased continuously from 67° to 88° C. Each Summer, Norris' Back Basin experiences an "annual disturbance" where individual hot springs and geysers typically show anomalous boiling, and have measurable increases in turbidity, acidity and SO4/Cl ratios. The disturbance has been linked to depressurization of the hydrothermal system as the

  9. Multiple estimates of effective population size for monitoring a long-lived vertebrate: an application to Yellowstone grizzly bears.

    PubMed

    Kamath, Pauline L; Haroldson, Mark A; Luikart, Gordon; Paetkau, David; Whitman, Craig; van Manen, Frank T

    2015-11-01

    Effective population size (N(e)) is a key parameter for monitoring the genetic health of threatened populations because it reflects a population's evolutionary potential and risk of extinction due to genetic stochasticity. However, its application to wildlife monitoring has been limited because it is difficult to measure in natural populations. The isolated and well-studied population of grizzly bears (Ursus arctos) in the Greater Yellowstone Ecosystem provides a rare opportunity to examine the usefulness of different N(e) estimators for monitoring. We genotyped 729 Yellowstone grizzly bears using 20 microsatellites and applied three single-sample estimators to examine contemporary trends in generation interval (GI), effective number of breeders (N(b)) and N(e) during 1982-2007. We also used multisample methods to estimate variance (N(eV)) and inbreeding N(e) (N(eI)). Single-sample estimates revealed positive trajectories, with over a fourfold increase in N(e) (≈100 to 450) and near doubling of the GI (≈8 to 14) from the 1980s to 2000s. N(eV) (240-319) and N(eI) (256) were comparable with the harmonic mean single-sample N(e) (213) over the time period. Reanalysing historical data, we found N(eV) increased from ≈80 in the 1910s-1960s to ≈280 in the contemporary population. The estimated ratio of effective to total census size (N(e) /N(c)) was stable and high (0.42-0.66) compared to previous brown bear studies. These results support independent demographic evidence for Yellowstone grizzly bear population growth since the 1980s. They further demonstrate how genetic monitoring of N(e) can complement demographic-based monitoring of N(c) and vital rates, providing a valuable tool for wildlife managers. © 2015 John Wiley & Sons Ltd.

  10. Carnivore re-colonisation: Reality, possibility and a non-equilibrium century for grizzly bears in the southern Yellowstone ecosystem

    USGS Publications Warehouse

    Pyare, Sanjay; Cain, S.; Moody, D.; Schwartz, C.; Berger, J.

    2004-01-01

    Most large native carnivores have experienced range contractions due to conflicts with humans, although neither rates of spatial collapse nor expansion have been well characterised. In North America, the grizzly bear (Ursus arctos) once ranged from Mexico northward to Alaska, however its range in the continental USA has been reduced by 95-98%. Under the U. S. Endangered Species Act, the Yellowstone grizzly bear population has re-colonised habitats outside Yellowstone National Park. We analysed historical and current records, including data on radio-collared bears, (1) to evaluate changes in grizzly bear distribution in the southern Greater Yellowstone Ecosystem (GYE) over a 100-year period, (2) to utilise historical rates of re-colonisation to project future expansion trends and (3) to evaluate the reality of future expansion based on human limitations and land use. Analysis of distribution in 20-year increments reflects range reduction from south to north (1900-1940) and expansion to the south (1940-2000). Expansion was exponential and the area occupied by grizzly bears doubled approximately every 20 years. A complementary analysis of bear occurrence in Grand Teton National Park also suggests an unprecedented period of rapid expansion during the last 20-30 years. The grizzly bear population currently has re-occupied about 50% of the southern GYE. Based on assumptions of continued protection and ecological stasis, our model suggests total occupancy in 25 years. Alternatively, extrapolation of linear expansion rates from the period prior to protection suggests total occupancy could take > 100 years. Analyses of historical trends can be useful as a restoration tool because they enable a framework and timeline to be constructed to pre-emptively address the social challenges affecting future carnivore recovery. ?? 2004 The Zoological Society of London.

  11. Use of sulfur and nitrogen stable isotopes to determine the importance of whitebark pine nuts to Yellowstone grizzly bears

    USGS Publications Warehouse

    Felicetti, L.A.; Schwartz, C.C.; Rye, R.O.; Haroldson, M.A.; Gunther, K.A.; Phillips, D.L.; Robbins, C.T.

    2003-01-01

    Whitebark pine (Pinus albicaulis) is a masting species that produces relatively large, fat- and protein-rich nuts that are consumed by grizzly bears (Ursus arctos horribilis). Trees produce abundant nut crops in some years and poor crops in other years. Grizzly bear survival in the Greater Yellowstone Ecosystem is strongly linked to variation in pine-nut availability. Because whitebark pine trees are infected with blister rust (Cronartium ribicola), an exotic fungus that has killed the species throughout much of its range in the northern Rocky Mountains, we used stable isotopes to quantify the importance of this food resource to Yellowstone grizzly bears while healthy populations of the trees still exist. Whitebark pine nuts have a sulfur-isotope signature (9.2 ?? 1.3??? (mean ?? 1 SD)) that is distinctly different from those of all other grizzly bear foods (ranging from 1.9 ?? 1.7??? for all other plants to 3.1 ?? 2.6??? for ungulates). Feeding trials with captive grizzly bears were used to develop relationships between dietary sulfur-, carbon-, and nitrogen-isotope signatures and those of bear plasma. The sulfur and nitrogen relationships were used to estimate the importance of pine nuts to free-ranging grizzly bears from blood and hair samples collected between 1994 and 2001. During years of poor pine-nut availability, 72% of the bears made minimal use of pine nuts. During years of abundant cone availability, 8 ?? 10% of the bears made minimal use of pine nuts, while 67 ?? 19% derived over 51% of their assimilated sulfur and nitrogen (i.e., protein) from pine nuts. Pine nuts and meat are two critically important food resources for Yellowstone grizzly bears.

  12. River Incision and Knickpoints on the Flank of the Yellowstone Hotspot — Alpine Canyon of the Snake River, Wyoming

    NASA Astrophysics Data System (ADS)

    Tuzlak, D.; Pederson, J. L.

    2015-12-01

    Understanding patterns of deformation and testing geophysical models in the dynamic region of the Yellowstone Hotspot requires Quaternary-scale records of incision and uplift, which are currently absent. This study examines fluvial terraces and longitudinal-profile metrics along Alpine Canyon of the Snake River, WY. Because the Snake is the only regional river crossing from the uplifting Yellowstone Plateau and flowing into the subsiding Eastern Snake River Plain, it provides an opportunity to investigate both ends of the phenomenon. Field observations through Alpine Canyon indicate that Pleistocene incision rates in this region are relatively high for the interior western U.S., that the river switches between bedrock and alluvial forms, and that incision/uplift is not uniform. Two endmembers of regional deformation may be tested: 1) the arch of high topography surrounding Yellowstone is uplifting and terraces converge downstream as incision rates decrease towards the Snake River Plain, or 2) baselevel fall originates at the subsiding Snake River Plain and terraces diverge as incision rates increase downstream. Datasets include surficial mapping, rock strength measurements, surveying of the longitudinal profile and terraces using RTK-GPS, optically stimulated luminescence dating of fluvial-terrace deposits, and investigation of drainages through ksn and χ analyses. Initial results indicate that there are four primary terrace deposits along the canyon, three of which are timed with glacial epochs. Considering the relative heights of terrace straths and preliminary ages, incision rates are indeed relatively high. There is a major knickzone covering the last 15 km of the canyon that is also reflected in tributary profiles and is consistent with a wave of incision propagating upstream, favoring the second endmember of active baselevel fall downstream.

  13. Symbiosis and the origin of eukaryotic motility

    NASA Technical Reports Server (NTRS)

    Margulis, L.; Hinkle, G.

    1991-01-01

    Ongoing work to test the hypothesis of the origin of eukaryotic cell organelles by microbial symbioses is discussed. Because of the widespread acceptance of the serial endosymbiotic theory (SET) of the origin of plastids and mitochondria, the idea of the symbiotic origin of the centrioles and axonemes for spirochete bacteria motility symbiosis was tested. Intracellular microtubular systems are purported to derive from symbiotic associations between ancestral eukaryotic cells and motile bacteria. Four lines of approach to this problem are being pursued: (1) cloning the gene of a tubulin-like protein discovered in Spirocheata bajacaliforniesis; (2) seeking axoneme proteins in spirochets by antibody cross-reaction; (3) attempting to cultivate larger, free-living spirochetes; and (4) studying in detail spirochetes (e.g., Cristispira) symbiotic with marine animals. Other aspects of the investigation are presented.

  14. Draft Genome Sequence of Bacillus licheniformis Strain YNP1-TSU Isolated from Whiterock Springs in Yellowstone National Park

    PubMed Central

    O'Hair, Joshua A.; Li, Hui; Thapa, Santosh; Scholz, Matthew B.

    2017-01-01

    ABSTRACT Novel cellulolytic microorganisms can potentially influence second-generation biofuel production. This paper reports the draft genome sequence of Bacillus licheniformis strain YNP1-TSU, isolated from hydrothermal-vegetative microbiomes inside Yellowstone National Park. The assembled sequence contigs predicted 4,230 coding genes, 66 tRNAs, and 10 rRNAs through automated annotation. PMID:28254968

  15. The Geology and Remarkable Thermal Activity of Norris Geyser Basin, Yellowstone National Park, Wyoming

    USGS Publications Warehouse

    White, Donald Edward; Hutchinson, Roderick A.; Keith, Terry E.C.

    1988-01-01

    Norris Geyser Basin, normally shortened to Norris Basin, is adjacent to the north rim of the Yellowstone caldera at the common intersection of the caldera rim and the Norris-Mammoth Corridor, a zone of faults, volcanic vents, and thermal activity that strikes north from the caldera rim to Mammoth Hot Springs. An east-west fault zone terminates the Gallatin Range at its southern end and extends from Hebgen Lake, west of the park, to Norris Basin. No local evidence exists at the surface in Norris Basin for the two oldest Yellowstone volcanic caldera cycles (~2.0 and 1.3 m.y.B.P.). The third and youngest cycle formed the Yellowstone caldera, which erupted the 600,000-year-old Lava Creek Tuff. No evidence is preserved of hydrothermal activity near Norris Basin during the first 300,000.years after the caldera collapse. Glaciation probably removed most of the early evidence, but erratics of hot-spring sinter that had been converted diagenetically to extremely hard, resistant chalcedonic sinter are present as cobbles in and on some moraines and till from the last two glacial stages, here correlated with the early and late stages of the Pinedale glaciation <150,000 years B.P.). Indirect evidence for the oldest hydrothermal system at Norris Basin indicates an age probably older than both stages of Pinedale glaciation. Stream deposits consisting mainly of rounded quartz phenocrysts of the Lava Creek Tuff were subaerial, perhaps in part windblown and redeposited by streams. A few small rounded pebbles are interpreted as chalcedonic sinter of a still older cycle. None of these are precisely dated but are unlikely to be more than 150,000 to 200,000 years old. ...Most studies of active hydrothermal areas have noted chemical differences in fluids and alteration products but have given little attention to differences and models to explain evolution in types. This report, in contrast, emphasizes the kinds of changes in vents and their changing chemical types of waters and then

  16. Eukaryotes in the gut microbiota in myalgic encephalomyelitis/chronic fatigue syndrome

    PubMed Central

    Mandarano, Alexandra H.; Giloteaux, Ludovic; Keller, Betsy A.; Levine, Susan M.

    2018-01-01

    Patients with myalgic encephalomyelitis/chronic fatigue syndrome (ME/CFS) often suffer from gastrointestinal symptoms and many are diagnosed with irritable bowel syndrome (IBS). Previous studies, including from our laboratory, have demonstrated that the ME/CFS gut bacterial composition is altered and less diverse when compared to healthy individuals. Patients have increased biomarkers of inflammation and leaky gut syndrome. To further investigate dysbiosis in the ME/CFS gut microbiome, we sought to characterize the eukaryotes present in the gut of 49 individuals with ME/CFS and 39 healthy controls. Using 18S rRNA sequencing, we have identified eukaryotes in stool samples of 17 healthy individuals and 17 ME/CFS patients. Our analysis demonstrates a small, nonsignificant decrease in eukaryotic diversity in ME/CFS patients compared to healthy individuals. In addition, ME/CFS patients show a nonsignificant increase in the ratio of fungal phyla Basidiomycota to Ascomycota, which is consistent with ongoing inflammation in ME/CFS. We did not identify specific eukaryotic taxa that are associated with ME/CFS disease status. PMID:29375937

  17. Chlamydial-caused infectious keratoconjunctivitis in bighorn sheep of Yellowstone National Park

    USGS Publications Warehouse

    Meagher, Mary; Quinn, William J.; Stackhouse, Larry

    1992-01-01

    An epizootic of infectious keratoconjuctivitis occurred in bighorn sheep (Ovis canadensis) in Yellowstone National Park during the winter of 1981-82. The causative organism was identified as Chlamydia sp. Mortality related to the epizootic was approximately 60% of an estimated 500 bighorn sheep in the northern range population. The infection probably affected all sex and age classes, but field surveys of live animals and mortality suggested that mature rams died disproportionately. Limited field observations the following winter on individuals having both normal and cloudy-appearing eyes suggested that half of the bighorns then present on the core units of winter range had contracted the disease and survived. By 1988, there were about 300 bighorn sheep in the population.

  18. Function-selective domain architecture plasticity potentials in eukaryotic genome evolution

    PubMed Central

    Linkeviciute, Viktorija; Rackham, Owen J.L.; Gough, Julian; Oates, Matt E.; Fang, Hai

    2015-01-01

    To help evaluate how protein function impacts on genome evolution, we introduce a new concept of ‘architecture plasticity potential’ – the capacity to form distinct domain architectures – both for an individual domain, or more generally for a set of domains grouped by shared function. We devise a scoring metric to measure the plasticity potential for these domain sets, and evaluate how function has changed over time for different species. Applying this metric to a phylogenetic tree of eukaryotic genomes, we find that the involvement of each function is not random but highly selective. For certain lineages there is strong bias for evolution to involve domains related to certain functions. In general eukaryotic genomes, particularly animals, expand complex functional activities such as signalling and regulation, but at the cost of reducing metabolic processes. We also observe differential evolution of transcriptional regulation and a unique evolutionary role of channel regulators; crucially this is only observable in terms of the architecture plasticity potential. Our findings provide a new layer of information to understand the significance of function in eukaryotic genome evolution. A web search tool, available at http://supfam.org/Pevo, offers a wide spectrum of options for exploring functional importance in eukaryotic genome evolution. PMID:25980317

  19. Vegetation monitoring to detect and predict vegetation change: Connecting historical and future shrub/steppe data in Yellowstone National Park

    Treesearch

    Geneva Chong; David Barnett; Benjamin Chemel; Roy Renkin; Pamela Sikkink

    2011-01-01

    A 2002 National Research Council (NRC) evaluation of ungulate management practices in Yellowstone specifically concluded that previous (1957 to present) vegetation monitoring efforts were insufficient to determine whether climate or ungulates were more influential on shrub/steppe dynamics on the northern ungulate winter range. The NRC further recommended that the...

  20. Serological survey for diseases in free-ranging coyotes (Canis latrans) in Yellowstone National Park, Wyoming.

    PubMed

    Gese, E M; Schultz, R D; Johnson, M R; Williams, E S; Crabtree, R L; Ruff, R L

    1997-01-01

    From October 1989 to June 1993, we captured and sampled 110 coyotes (Canis latrans) for various diseases in Yellowstone National Park, Wyoming (USA). Prevalence of antibodies against canine parvovirus (CPV) was 100% for adults (> 24 months old), 100% for yearlings (12 to 24 months old), and 100% for old pups (4 to 12 months old); 0% of the young pups (< 3 months old) had antibodies against CPV. Presence of antibodies against canine distemper virus (CDV) was associated with the age of the coyote, with 88%, 54%, 23%, and 0% prevalence among adults, yearlings, old pups, and young pups, respectively. Prevalence of CDV antibodies declined over time from 100% in 1989 to 33% in 1992. The prevalence of canine infectious hepatitis (ICH) virus antibodies was 97%, 82%, 54%, and 33%, for adults, yearlings, old pups, and young pups, respectively. The percentage of coyotes with ICH virus antibodies also declined over time from a high of 100% in 1989 to 31% in 1992, and 42% in 1993. Prevalence of antibodies against Yersinia pestis was 86%, 33%, 80%, and 7%, for adults, yearlings, old pups, and young pups, respectively, and changed over time from 57% in 1991 to 0% in 1993. The prevalence of antibodies against Francisella tularensis was 21%, 17%, 10%, and 20%, for adults, yearlings, old pups, and young pups, respectively. No coyotes had serologic evidence of exposure to brucellosis, either Brucella abortus or Brucella canis. No coyotes were seropositive to Leptospira interrogans (serovars canicola, hardjo, and icterohemorrhagiae). Prevalence of antibodies against L. interrogans serovar pomona was 7%, 0%, 0%, and 9%, for adults, yearlings, old pups, and young pups, respectively. Antibodies against L. interrogans serovar grippotyphosa were present in 17% of adults and 0% of yearlings, old pups, and young pups. Many infectious canine pathogens (CPV, CDV, ICH virus) are prevalent in coyotes in Yellowstone National Park, with CPV influencing coyote pup survival during the first 3 months

  1. Grizzly bear-human conflicts in the Yellowstone Ecosystem, 1992-2000

    USGS Publications Warehouse

    Gunther, K.A.; Haroldson, M.A.; Cain, S.L.; Copeland, J.; Frey, K.; Schwartz, C.C.

    2004-01-01

    For many years, the primary strategy for managing grizzly bears (Ursus arctos) that came into conflict with humans in the Greater Yellowstone Ecosystem (GYE) was to capture and translocate the offending bears away from conflict sites. Translocation usually only temporarily alleviated the problems and most often did not result in long-term solutions. Wildlife managers needed to be able to predict the causes, types, locations, and trends of conflicts to more efficiently allocate resources for pro-active rather than reactive management actions. To address this need, we recorded all grizzly bear-human conflicts reported in the GYE during 1992-2000. We analyzed trends in conflicts over time (increasing or decreasing), geographic location on macro- (inside or outside of the designated Yellowstone Grizzly Bear Recovery Zone [YGBRZ]) and micro- (geographic location) scales, land ownership (public or private), and relationship to the seasonal availability of bear foods. We recorded 995 grizzly bear-human conflicts in the GYE. Fifty-three percent of the conflicts occurred outside and 47% inside the YGBRZ boundary. Fifty-nine percent of the conflicts occurred on public and 41% on private land. Incidents of bears damaging property and obtaining anthropogenic foods were inversely correlated to the abundance of naturally occurring bear foods. Livestock depredations occurred independent of the availability of bear foods. To further aid in prioritizing management strategies to reduce conflicts, we also analyzed conflicts in relation to subsequent human-caused grizzly bear mortality. There were 74 human-caused grizzly bear mortalities during the study, primarily from killing bears in defense of life and property (43%) and management removal of bears involved in bear-human conflicts (28%). Other sources of human-caused mortality included illegal kills, electrocution by downed power-lines, mistaken identification by American black bear (Ursus americanus) hunters, and vehicle strikes

  2. Macroevolutionary trends of atomic composition and related functional group proportion in eukaryotic and prokaryotic proteins.

    PubMed

    Zhang, Yu-Juan; Yang, Chun-Lin; Hao, You-Jin; Li, Ying; Chen, Bin; Wen, Jian-Fan

    2014-01-25

    To fully explore the trends of atomic composition during the macroevolution from prokaryote to eukaryote, five atoms (oxygen, sulfur, nitrogen, carbon, hydrogen) and related functional groups in prokaryotic and eukaryotic proteins were surveyed and compared. Genome-wide analysis showed that eukaryotic proteins have more oxygen, sulfur and nitrogen atoms than prokaryotes do. Clusters of Orthologous Groups (COG) analysis revealed that oxygen, sulfur, carbon and hydrogen frequencies are higher in eukaryotic proteins than in their prokaryotic orthologs. Furthermore, functional group analysis demonstrated that eukaryotic proteins tend to have higher proportions of sulfhydryl, hydroxyl and acylamino, but lower of sulfide and carboxyl. Taken together, an apparent trend of increase was observed for oxygen and sulfur atoms in the macroevolution; the variation of oxygen and sulfur compositions and their related functional groups in macroevolution made eukaryotic proteins carry more useful functional groups. These results will be helpful for better understanding the functional significances of atomic composition evolution. Copyright © 2013 Elsevier B.V. All rights reserved.

  3. The origin and diversification of eukaryotes: problems with molecular phylogenetics and molecular clock estimation

    PubMed Central

    Roger, Andrew J; Hug, Laura A

    2006-01-01

    Determining the relationships among and divergence times for the major eukaryotic lineages remains one of the most important and controversial outstanding problems in evolutionary biology. The sequencing and phylogenetic analyses of ribosomal RNA (rRNA) genes led to the first nearly comprehensive phylogenies of eukaryotes in the late 1980s, and supported a view where cellular complexity was acquired during the divergence of extant unicellular eukaryote lineages. More recently, however, refinements in analytical methods coupled with the availability of many additional genes for phylogenetic analysis showed that much of the deep structure of early rRNA trees was artefactual. Recent phylogenetic analyses of a multiple genes and the discovery of important molecular and ultrastructural phylogenetic characters have resolved eukaryotic diversity into six major hypothetical groups. Yet relationships among these groups remain poorly understood because of saturation of sequence changes on the billion-year time-scale, possible rapid radiations of major lineages, phylogenetic artefacts and endosymbiotic or lateral gene transfer among eukaryotes. Estimating the divergence dates between the major eukaryote lineages using molecular analyses is even more difficult than phylogenetic estimation. Error in such analyses comes from a myriad of sources including: (i) calibration fossil dates, (ii) the assumed phylogenetic tree, (iii) the nucleotide or amino acid substitution model, (iv) substitution number (branch length) estimates, (v) the model of how rates of evolution change over the tree, (vi) error inherent in the time estimates for a given model and (vii) how multiple gene data are treated. By reanalysing datasets from recently published molecular clock studies, we show that when errors from these various sources are properly accounted for, the confidence intervals on inferred dates can be very large. Furthermore, estimated dates of divergence vary hugely depending on the methods

  4. Controls on Thermal Discharge in Yellowstone NAtional Park, Wyoming

    NASA Astrophysics Data System (ADS)

    Mohrmann, Jacob Steven

    2007-10-01

    Significant fluctuations in discharge occur in hot springs in Yellowstone National Park on a seasonal to decadal scale (Ingebritsen et al., 2001) and an hourly scale (Vitale, 2002). The purpose of this study was to determine the interval of the fluctuations in discharge and to explain what causes those discharge patterns in three thermally influenced streams in Yellowstone National Park. By monitoring flow in these streams, whose primary source of input is thermal discharge, we were able to find several significant patterns of discharge fluctuations. Patterns were found by using two techniques of spectral analysis. The spectral analyses completed involved using the program "R" as well as Microsoft Excel, both of which use Fourier transforms. The Fourier transform is a linear operator that identifies frequencies in the original function. Stream flow data were collected using a FloDar open channel flow monitor. The flow meter collected data at15-minute intervals at White Creek and Rabbit Creek for a period of approximately two weeks each during the Fall. Flow data were also used from 15-minute data interval from a USGS gaging station at Tantalus Creek. Patterns of discharge fluctuation were found in each stream. By comparing spectral analysis results of flow data with spectral analysis of published tide data and barometric pressure data, connections were drawn between fluctuations in tidal and barometric-pressure patterns and flow patterns. Also, visual comparisons used to identify potential correspondence with earthquakes and precipitation events. At Tantalus Creek, patterns were affected only by barometric pressure changes. At White Creek, one pattern was attributed to barometric pressure fluctuations, and another pattern was found that could be associated with earth-tide forces. At Rabbit Creek, these patterns were absent. A pattern at 8.55 hours, which could not be attributed to barometric pressure or earth tide forces, was found at Rabbit and White Creeks. The 8

  5. HYDROTHERMAL MINERALOGY OF RESEARCH DRILL HOLE Y-3, YELLOWSTONE NATIONAL PARK, WYOMING.

    USGS Publications Warehouse

    Bargar, Keith E.; Beeson, Melvin H.

    1984-01-01

    The approximate paragenetic sequence of hydrothermal minerals in the Y-3 U. S. Geological Survey research diamond-drill hole in Lower Geyser Basin, Yellowstone National Park, Wyoming, is: hydrothermal chalcedony, hematite, pyrite, quartz, clay minerals (smectite and mixed-layer illite-smectite), calcite, chlorite, fluorite, pyrite, quartz, zeolite minerals (analcime, dachiardite, laumontite, stilbite, and yugawaralite), and clay minerals (smectite and mixed-layer illite-smectite). A few hydrothermal minerals that were identified in drill core Y-3 (lepidolite, aegirine, pectolite, and truscottite) are rarely found in modern geothermal areas. The alteration minerals occur primarily as vug and fracture fillings that were deposited from cooling thermal water. Refs.

  6. Emerging players in the initiation of eukaryotic DNA replication

    PubMed Central

    2012-01-01

    Faithful duplication of the genome in eukaryotes requires ordered assembly of a multi-protein complex called the pre-replicative complex (pre-RC) prior to S phase; transition to the pre-initiation complex (pre-IC) at the beginning of DNA replication; coordinated progression of the replisome during S phase; and well-controlled regulation of replication licensing to prevent re-replication. These events are achieved by the formation of distinct protein complexes that form in a cell cycle-dependent manner. Several components of the pre-RC and pre-IC are highly conserved across all examined eukaryotic species. Many of these proteins, in addition to their bona fide roles in DNA replication are also required for other cell cycle events including heterochromatin organization, chromosome segregation and centrosome biology. As the complexity of the genome increases dramatically from yeast to human, additional proteins have been identified in higher eukaryotes that dictate replication initiation, progression and licensing. In this review, we discuss the newly discovered components and their roles in cell cycle progression. PMID:23075259

  7. Enzymes involved in organellar DNA replication in photosynthetic eukaryotes.

    PubMed

    Moriyama, Takashi; Sato, Naoki

    2014-01-01

    Plastids and mitochondria possess their own genomes. Although the replication mechanisms of these organellar genomes remain unclear in photosynthetic eukaryotes, several organelle-localized enzymes related to genome replication, including DNA polymerase, DNA primase, DNA helicase, DNA topoisomerase, single-stranded DNA maintenance protein, DNA ligase, primer removal enzyme, and several DNA recombination-related enzymes, have been identified. In the reference Eudicot plant Arabidopsis thaliana, the replication-related enzymes of plastids and mitochondria are similar because many of them are dual targeted to both organelles, whereas in the red alga Cyanidioschyzon merolae, plastids and mitochondria contain different replication machinery components. The enzymes involved in organellar genome replication in green plants and red algae were derived from different origins, including proteobacterial, cyanobacterial, and eukaryotic lineages. In the present review, we summarize the available data for enzymes related to organellar genome replication in green plants and red algae. In addition, based on the type and distribution of replication enzymes in photosynthetic eukaryotes, we discuss the transitional history of replication enzymes in the organelles of plants.

  8. Mechanisms and regulation of DNA replication initiation in eukaryotes

    PubMed Central

    Parker, Matthew W.; Botchan, Michael R.; Berger, James M.

    2017-01-01

    Cellular DNA replication is initiated through the action of multiprotein complexes that recognize replication start sites in the chromosome (termed origins) and facilitate duplex DNA melting within these regions. In a given cell cycle, initiation occurs only once per origin and each round of replication is tightly coupled to cell division. To avoid aberrant origin firing and re-replication, eukaryotes tightly regulate two events in the initiation process: loading of the replicative helicase, MCM2-7, onto chromatin by the Origin Recognition Complex (ORC), and subsequent activation of the helicase by incorporation into a complex known as the CMG. Recent work has begun to reveal the details of an orchestrated and sequential exchange of initiation factors on DNA that give rise to a replication-competent complex, the replisome. Here we review the molecular mechanisms that underpin eukaryotic DNA replication initiation – from selecting replication start sites to replicative helicase loading and activation – and describe how these events are often distinctly regulated across different eukaryotic model organisms. PMID:28094588

  9. Exaptive origins of regulated mRNA decay in eukaryotes.

    PubMed

    Hamid, Fursham M; Makeyev, Eugene V

    2016-09-01

    Eukaryotic gene expression is extensively controlled at the level of mRNA stability and the mechanisms underlying this regulation are markedly different from their archaeal and bacterial counterparts. We propose that two such mechanisms, nonsense-mediated decay (NMD) and motif-specific transcript destabilization by CCCH-type zinc finger RNA-binding proteins, originated as a part of cellular defense against RNA pathogens. These branches of the mRNA turnover pathway might have been used by primeval eukaryotes alongside RNA interference to distinguish their own messages from those of RNA viruses and retrotransposable elements. We further hypothesize that the subsequent advent of "professional" innate and adaptive immunity systems allowed NMD and the motif-triggered mechanisms to be efficiently repurposed for regulation of endogenous cellular transcripts. This scenario explains the rapid emergence of archetypical mRNA destabilization pathways in eukaryotes and argues that other aspects of post-transcriptional gene regulation in this lineage might have been derived through a similar exaptation route. © 2016 The Authors BioEssays Published by WILEY Periodicals, Inc.

  10. Ubiquitination dynamics in the early-branching eukaryote Giardia intestinalis

    PubMed Central

    Niño, Carlos A; Chaparro, Jenny; Soffientini, Paolo; Polo, Simona; Wasserman, Moises

    2013-01-01

    Ubiquitination is a highly dynamic and versatile posttranslational modification that regulates protein function, stability, and interactions. To investigate the roles of ubiquitination in a primitive eukaryotic lineage, we utilized the early-branching eukaryote Giardia intestinalis. Using a combination of biochemical, immunofluorescence-based, and proteomics approaches, we assessed the ubiquitination status during the process of differentiation in Giardia. We observed that different types of ubiquitin modifications present specific cellular and temporal distribution throughout the Giardia life cycle from trophozoites to cyst maturation. Ubiquitin signal was detected in the wall of mature cysts, and enzymes implicated in cyst wall biogenesis were identified as substrates for ubiquitination. Interestingly, inhibition of proteasome activity did not affect trophozoite replication and differentiation, while it caused a decrease in cyst viability, arguing for proteasome involvement in cyst wall maturation. Using a proteomics approach, we identified around 200 high-confidence ubiquitinated candidates that vary their ubiquitination status during differentiation. Our results indicate that ubiquitination is critical for several cellular processes in this primitive eukaryote. PMID:23613346

  11. Body condition and pregnancy in northern Yellowstone elk: evidence for predation risk effects?

    PubMed

    White, P J; Garrott, Robert A; Hamlin, Kenneth L; Cook, Rachel C; Cook, John G; Cunningham, Julie A

    2011-01-01

    S. Creel et al. reported a negative correlation between fecal progesterone concentrations and elk:wolf ratios in greater Yellowstone elk (Cervus elaphus) herds and interpreted this correlation as evidence that pregnancy rates of elk decreased substantially in the presence of wolves (Canis lupus). Apparently, the hypothesized mechanism is that decreased forage intake reduces body condition and either results in elk failing to conceive during the autumn rut or elk losing the fetus during winter. We tested this hypothesis by comparing age-specific body condition (percentage ingesta-free body fat) and pregnancy rates for northern Yellowstone elk, one of the herds sampled by Creel et al., before (1962-1968) and after (2000-2006) wolf restoration using indices developed and calibrated for Rocky Mountain elk. Mean age-adjusted percentage body fat of female elk was similarly high in both periods (9.0%-0.9% pre-wolf; 8.9%-0.8% post-wolf). Estimated pregnancy rates (proportion of females that were pregnant) were 0.91 pre-wolf and 0.87 post-wolf for 4-9 year-old elk (95% CI on difference = -0.15 to 0.03, P = 0.46) and 0.64 pre-wolf and 0.78 post-wolf for elk > 9 years old (95% CI on difference = -0.01 to 0.27, P = 0.06). Thus, there was little evidence in these data to support strong effects of wolf presence on elk pregnancy. We caution that multiple lines of evidence and/or strong validation should be brought to bear before relying on indirect measures of how predators affect pregnancy rates.

  12. Continued warming could transform Greater Yellowstone fire regimes by mid-21st century

    PubMed Central

    Westerling, Anthony L.; Turner, Monica G.; Smithwick, Erica A. H.; Romme, William H.; Ryan, Michael G.

    2011-01-01

    Climate change is likely to alter wildfire regimes, but the magnitude and timing of potential climate-driven changes in regional fire regimes are not well understood. We considered how the occurrence, size, and spatial location of large fires might respond to climate projections in the Greater Yellowstone ecosystem (GYE) (Wyoming), a large wildland ecosystem dominated by conifer forests and characterized by infrequent, high-severity fire. We developed a suite of statistical models that related monthly climate data (1972–1999) to the occurrence and size of fires >200 ha in the northern Rocky Mountains; these models were cross-validated and then used with downscaled (∼12 km × 12 km) climate projections from three global climate models to predict fire occurrence and area burned in the GYE through 2099. All models predicted substantial increases in fire by midcentury, with fire rotation (the time to burn an area equal to the landscape area) reduced to <30 y from the historical 100–300 y for most of the GYE. Years without large fires were common historically but are expected to become rare as annual area burned and the frequency of regionally synchronous fires increase. Our findings suggest a shift to novel fire–climate–vegetation relationships in Greater Yellowstone by midcentury because fire frequency and extent would be inconsistent with persistence of the current suite of conifer species. The predicted new fire regime would transform the flora, fauna, and ecosystem processes in this landscape and may indicate similar changes for other subalpine forests. PMID:21788495

  13. The earliest low and high δ18O caldera-forming eruptions of the Yellowstone plume: Implications for the 30-40 Ma Oregon calderas and speculations on plume-triggered delaminations

    NASA Astrophysics Data System (ADS)

    Seligman, Angela; Bindeman, Ilya; McClaughry, Jason; Stern, Richard; Fisher, Chris

    2014-11-01

    We present new isotopic and trace element data for four eruptive centers in Oregon: Wildcat Mountain (40 Ma), Crooked River (32-28 Ma), Tower Mountain (32 Ma), and Mohawk River (32 Ma). The first three calderas are located too far east to be sourced through renewed subduction of the Farallon slab following accretion of the Yellowstone-produced Siletzia terrane at ~50 Ma. Basalts of the three eastern eruptive centers yield high Nb/Yb and Th/Yb ratios, indicating an enriched sublithospheric mantle source, while Mohawk River yields trace element and isotopic (δ18O and ɛHf) values that correlate with its location above a subduction zone. The voluminous rhyolitic tuffs and lavas of Crooked River (41 x 27 km) have δ18Ozircon values that include seven low δ18Ozircon units (1.8-4.5 ‰), one high δ18Ozircon unit (7.4-8.8 ‰), and two units with heterogeneous zircons (2.0-9.0 ‰), similar to younger Yellowstone-Snake River Plain rhyolites. In order to produce these low δ18O values, a large heat source, widespread hydrothermal circulation, and repeated remelting are all required. In contrast, Wildcat Mountain and Tower Mountain rocks yield high δ18Ozircon values (6.4-7.9 ‰) and normal to low ɛHfi values (5.2-12.6), indicating crustal melting of high-δ18O supracrustal rocks. We propose that these calderas were produced by the first appearance of the Yellowstone plume east of the Cascadia subduction zone, which is supported by plate reconstructions that put the Yellowstone plume under Crooked River at 32-28 Ma. Given the eastern location of these calderas along the suture of the accreted Siletzia terrane and North America, we suggest that the Yellowstone hotspot is directly responsible for magmatism at Crooked River, and for plume-assisted delamination of portions of the edge of the Blue Mountains that produced the Tower Mountain magmas, while the older Wildcat Mountain magmas are related to suture zone instabilities that were created following accretion of the

  14. The eukaryotic RNA exosome: same scaffold but variable catalytic subunits.

    PubMed

    Lykke-Andersen, Søren; Tomecki, Rafal; Jensen, Torben Heick; Dziembowski, Andrzej

    2011-01-01

    The RNA exosome is a versatile ribonucleolytic protein complex that participates in a multitude of cellular RNA processing and degradation events. It consists of an invariable nine-subunit core that associates with a variety of enzymatically active subunits and co-factors. These contribute to or even provide the catalytic activity and substrate specificity of the complex. The S. cerevisiae exosome has been intensively studied since its discovery in 1997 and thus serves as the archetype of eukaryotic exosomes. Notably, its catalytic potential, derived exclusively from associated subunits, differs between the nuclear and cytoplasmic versions of the complex. The same holds true for other eukaryotes, however, recent discoveries from various laboratories including our own have revealed that there are variations on this theme. Here, we review the latest findings concerning catalytic subunits of eukaryotic exosomes, and we discuss the apparent need for differential composition and subcellular distribution of exosome variants.

  15. Towards understanding the puzzling lack of acid geothermal springs in Tibet (China): Insight from a comparison with Yellowstone (USA) and some active volcanic hydrothermal systems

    USGS Publications Warehouse

    Nordstrom, D. Kirk; Guo, Qinghai; McCleskey, R. Blaine

    2014-01-01

    Explanations for the lack of acid geothermal springs in Tibet are inferred from a comprehensive hydrochemical comparison of Tibetan geothermal waters with those discharged from Yellowstone (USA) and two active volcanic areas, Nevado del Ruiz (Colombia) and Miravalles (Costa Rica) where acid springs are widely distributed and diversified in terms of geochemical characteristic and origin. For the hydrothermal areas investigated in this study, there appears to be a relationship between the depths of magma chambers and the occurrence of acid, chloride-rich springs formed via direct magmatic fluid absorption. Nevado del Ruiz and Miravalles with magma at or very close to the surface (less than 1–2 km) exhibit very acidic waters containing HCl and H2SO4. In contrast, the Tibetan hydrothermal systems, represented by Yangbajain, usually have fairly deep-seated magma chambers so that the released acid fluids are much more likely to be fully neutralized during transport to the surface. The absence of steam-heated acid waters in Tibet, however, may be primarily due to the lack of a confining layer (like young impermeable lavas at Yellowstone) to separate geothermal steam from underlying neutral chloride waters and the possible scenario that the deep geothermal fluids below Tibet carry less H2S than those below Yellowstone.

  16. Towards understanding the puzzling lack of acid geothermal springs in Tibet (China): Insight from a comparison with Yellowstone (USA) and some active volcanic hydrothermal systems

    NASA Astrophysics Data System (ADS)

    Guo, Qinghai; Kirk Nordstrom, D.; Blaine McCleskey, R.

    2014-11-01

    Explanations for the lack of acid geothermal springs in Tibet are inferred from a comprehensive hydrochemical comparison of Tibetan geothermal waters with those discharged from Yellowstone (USA) and two active volcanic areas, Nevado del Ruiz (Colombia) and Miravalles (Costa Rica) where acid springs are widely distributed and diversified in terms of geochemical characteristic and origin. For the hydrothermal areas investigated in this study, there appears to be a relationship between the depths of magma chambers and the occurrence of acid, chloride-rich springs formed via direct magmatic fluid absorption. Nevado del Ruiz and Miravalles with magma at or very close to the surface (less than 1-2 km) exhibit very acidic waters containing HCl and H2SO4. In contrast, the Tibetan hydrothermal systems, represented by Yangbajain, usually have fairly deep-seated magma chambers so that the released acid fluids are much more likely to be fully neutralized during transport to the surface. The absence of steam-heated acid waters in Tibet, however, may be primarily due to the lack of a confining layer (like young impermeable lavas at Yellowstone) to separate geothermal steam from underlying neutral chloride waters and the possible scenario that the deep geothermal fluids below Tibet carry less H2S than those below Yellowstone.

  17. The YNP Metagenome Project: Environmental Parameters Responsible for Microbial Distribution in the Yellowstone Geothermal Ecosystem

    PubMed Central

    Inskeep, William P.; Jay, Zackary J.; Tringe, Susannah G.; Herrgård, Markus J.; Rusch, Douglas B.

    2013-01-01

    The Yellowstone geothermal complex contains over 10,000 diverse geothermal features that host numerous phylogenetically deeply rooted and poorly understood archaea, bacteria, and viruses. Microbial communities in high-temperature environments are generally less diverse than soil, marine, sediment, or lake habitats and therefore offer a tremendous opportunity for studying the structure and function of different model microbial communities using environmental metagenomics. One of the broader goals of this study was to establish linkages among microbial distribution, metabolic potential, and environmental variables. Twenty geochemically distinct geothermal ecosystems representing a broad spectrum of Yellowstone hot-spring environments were used for metagenomic and geochemical analysis and included approximately equal numbers of: (1) phototrophic mats, (2) “filamentous streamer” communities, and (3) archaeal-dominated sediments. The metagenomes were analyzed using a suite of complementary and integrative bioinformatic tools, including phylogenetic and functional analysis of both individual sequence reads and assemblies of predominant phylotypes. This volume identifies major environmental determinants of a large number of thermophilic microbial lineages, many of which have not been fully described in the literature nor previously cultivated to enable functional and genomic analyses. Moreover, protein family abundance comparisons and in-depth analyses of specific genes and metabolic pathways relevant to these hot-spring environments reveal hallmark signatures of metabolic capabilities that parallel the distribution of phylotypes across specific types of geochemical environments. PMID:23653623

  18. Development of Ground Reference GIS for Assessing Land Cover Maps of Northeast Yellowstone National Park

    NASA Technical Reports Server (NTRS)

    Spruce, Joe; Warner, Amanda; Terrie, Greg; Davis, Bruce

    2001-01-01

    GIS technology and ground reference data often play vital roles in assessing land cover maps derived from remotely sensed data. This poster illustrates these roles, using results from a study done in Northeast Yellowstone National Park. This area holds many forest, range, and wetland cover types of interest to park managers. Several recent studies have focused on this locale, including the NASA Earth Observations Commercial Applications Program (EOCAP) hyperspectral project performed by Yellowstone Ecosystems Studies (YES) on riparian and in-stream habitat mapping. This poster regards a spin-off to the EOCAP project in which YES and NASA's Earth Science Applications Directorate explored the potential for synergistic use of hyperspecral, synthetic aperture radar, and multiband thermal imagery in mapping land cover types. The project included development of a ground reference GIS for site-specific data needed to evaluate maps from remotely sensed imagery. Field survey data included reflectance of plant communities, native and exotic plant species, and forest health conditions. Researchers also collected GPS points, annotated aerial photographs, and took hand held photographs of reference sites. The use of ESRI, ERDAS, and ENVI software enabled reference data entry into a GIS for comparision to georeferenced imagery and thematic maps. The GIS-based ground reference data layers supported development and assessment of multiple maps from remotely sensed data sets acquired over the study area.

  19. Metabarcoding reveals environmental factors influencing spatio-temporal variation in pelagic micro-eukaryotes.

    PubMed

    Brannock, Pamela M; Ortmann, Alice C; Moss, Anthony G; Halanych, Kenneth M

    2016-08-01

    Marine environments harbour a vast diversity of micro-eukaryotic organisms (protists and other small eukaryotes) that play important roles in structuring marine ecosystems. However, micro-eukaryote diversity is not well understood. Likewise, knowledge is limited regarding micro-eukaryote spatial and seasonal distribution, especially over long temporal scales. Given the importance of this group for mobilizing energy from lower trophic levels near the base of the food chain to larger organisms, assessing community stability, diversity and resilience is important to understand ecosystem health. Herein, we use a metabarcoding approach to examine pelagic micro-eukaryote communities over a 2.5-year time series. Bimonthly surface sampling (July 2009 to December 2011) was conducted at four locations within Mobile Bay (Bay) and along the Alabama continental shelf (Shelf). Alpha-diversity only showed significant differences in Shelf sites, with the greatest differences observed between summer and winter. Beta-diversity showed significant differences in community composition in relation to season and the Bay was dominated by diatoms, while the Shelf was characterized by dinoflagellates and copepods. The northern Gulf of Mexico is heavily influenced by the Mobile River Basin, which brings low-salinity nutrient-rich water mostly during winter and spring. Community composition was correlated with salinity, temperature and dissolved silicate. However, species interactions (e.g. predation and parasitism) may also contribute to the observed variation, especially on the Shelf, which warrants further exploration. Metabarcoding revealed clear patterns in surface pelagic micro-eukaryote communities that were consistent over multiple years, demonstrating how these techniques could be greatly beneficial to ecological monitoring and management over temporal scales. © 2016 John Wiley & Sons Ltd.

  20. Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes.

    PubMed

    Riechmann, J L; Heard, J; Martin, G; Reuber, L; Jiang, C; Keddie, J; Adam, L; Pineda, O; Ratcliffe, O J; Samaha, R R; Creelman, R; Pilgrim, M; Broun, P; Zhang, J Z; Ghandehari, D; Sherman, B K; Yu, G

    2000-12-15

    The completion of the Arabidopsis thaliana genome sequence allows a comparative analysis of transcriptional regulators across the three eukaryotic kingdoms. Arabidopsis dedicates over 5% of its genome to code for more than 1500 transcription factors, about 45% of which are from families specific to plants. Arabidopsis transcription factors that belong to families common to all eukaryotes do not share significant similarity with those of the other kingdoms beyond the conserved DNA binding domains, many of which have been arranged in combinations specific to each lineage. The genome-wide comparison reveals the evolutionary generation of diversity in the regulation of transcription.

  1. Arginine deiminase pathway enzymes: evolutionary history in metamonads and other eukaryotes.

    PubMed

    Novák, Lukáš; Zubáčová, Zuzana; Karnkowska, Anna; Kolisko, Martin; Hroudová, Miluše; Stairs, Courtney W; Simpson, Alastair G B; Keeling, Patrick J; Roger, Andrew J; Čepička, Ivan; Hampl, Vladimír

    2016-10-06

    Multiple prokaryotic lineages use the arginine deiminase (ADI) pathway for anaerobic energy production by arginine degradation. The distribution of this pathway among eukaryotes has been thought to be very limited, with only two specialized groups living in low oxygen environments (Parabasalia and Diplomonadida) known to possess the complete set of all three enzymes. We have performed an extensive survey of available sequence data in order to map the distribution of these enzymes among eukaryotes and to reconstruct their phylogenies. We have found genes for the complete pathway in almost all examined representatives of Metamonada, the anaerobic protist group that includes parabasalids and diplomonads. Phylogenetic analyses indicate the presence of the complete pathway in the last common ancestor of metamonads and heterologous transformation experiments suggest its cytosolic localization in the metamonad ancestor. Outside Metamonada, the complete pathway occurs rarely, nevertheless, it was found in representatives of most major eukaryotic clades. Phylogenetic relationships of complete pathways are consistent with the presence of the Archaea-derived ADI pathway in the last common ancestor of all eukaryotes, although other evolutionary scenarios remain possible. The presence of the incomplete set of enzymes is relatively common among eukaryotes and it may be related to the fact that these enzymes are involved in other cellular processes, such as the ornithine-urea cycle. Single protein phylogenies suggest that the evolutionary history of all three enzymes has been shaped by frequent gene losses and horizontal transfers, which may sometimes be connected with their diverse roles in cellular metabolism.

  2. Three distinct modes of intron dynamics in the evolution of eukaryotes.

    PubMed

    Carmel, Liran; Wolf, Yuri I; Rogozin, Igor B; Koonin, Eugene V

    2007-07-01

    Several contrasting scenarios have been proposed for the origin and evolution of spliceosomal introns, a hallmark of eukaryotic genes. A comprehensive probabilistic model to obtain a definitive reconstruction of intron evolution was developed and applied to 391 sets of conserved genes from 19 eukaryotic species. It is inferred that a relatively high intron density was reached early, i.e., the last common ancestor of eukaryotes contained >2.15 introns/kilobase, and the last common ancestor of multicellular life forms harbored approximately 3.4 introns/kilobase, a greater intron density than in most of the extant fungi and in some animals. The rates of intron gain and intron loss appear to have been dropping during the last approximately 1.3 billion years, with the decline in the gain rate being much steeper. Eukaryotic lineages exhibit three distinct modes of evolution of the intron-exon structure. The primary, balanced mode, apparently, operates in all lineages. In this mode, intron gain and loss are strongly and positively correlated, in contrast to previous reports on inverse correlation between these processes. The second mode involves an elevated rate of intron loss and is prevalent in several lineages, such as fungi and insects. The third mode, characterized by elevated rate of intron gain, is seen only in deep branches of the tree, indicating that bursts of intron invasion occurred at key points in eukaryotic evolution, such as the origin of animals. Intron dynamics could depend on multiple mechanisms, and in the balanced mode, gain and loss of introns might share common mechanistic features.

  3. High temperature hydrothermal vent fluids in Yellowstone Lake: Observations and insights from in-situ pH and redox measurements

    NASA Astrophysics Data System (ADS)

    Tan, Chunyang; Cino, Christie D.; Ding, Kang; Seyfried, William E.

    2017-09-01

    ROV investigation of hydrothermal fluids issuing from vents on the floor of Yellowstone lake revealed temperatures in excess of 170 °C - the highest temperature yet reported for vent fluids within Yellowstone National Park (YNP). The study site is east of Stevenson Island at depth of approximately 100-125 m. In-situ pH and redox measurements of vent fluids were made using solid state sensors designed to sustain the elevated temperatures and pressures. YSZ membrane electrode with Ag/Ag2O internal element and internal pressure balanced Ag/AgCl reference electrode were used to measure pH, while a platinum electrode provided redox constraints. Lab verification of the pH sensor confirmed excellent agreement with Nernst law predictions, especially at temperatures in excess of 120 °C. In-situ pH values of between 4.2 and 4.5 were measured for the vent fluids at temperatures of 120 to 150 °C. The slightly acidic vent fluids are likely caused by CO2 enrichment in association with magmatic degassing effects that occur throughout YNP. This is consistent with results of simple model calculations and direct observation of CO2 bubbles in the immediate vicinity of the lake floor vents. Simultaneous redox measurements indicated moderate to highly reducing conditions (- 0.2 to - 0.3 V). As typical of measurements of this kind, internal and external redox disequilibria likely preclude unambiguous determination of redox controlling reactions. Redox disequilibria, however, can be expected to drive microbial metabolism and diversity in the near vent environment. Thus, the combination of in-situ pH and redox sensor deployments may ultimately provide the requisite framework to better understand the microbiology of the newly discovered hot vents on Yellowstone lake floor.

  4. Diversity of Eukaryotic Translational Initiation Factor eIF4E in Protists.

    PubMed

    Jagus, Rosemary; Bachvaroff, Tsvetan R; Joshi, Bhavesh; Place, Allen R

    2012-01-01

    The greatest diversity of eukaryotic species is within the microbial eukaryotes, the protists, with plants and fungi/metazoa representing just two of the estimated seventy five lineages of eukaryotes. Protists are a diverse group characterized by unusual genome features and a wide range of genome sizes from 8.2 Mb in the apicomplexan parasite Babesia bovis to 112,000-220,050 Mb in the dinoflagellate Prorocentrum micans. Protists possess numerous cellular, molecular and biochemical traits not observed in "text-book" model organisms. These features challenge some of the concepts and assumptions about the regulation of gene expression in eukaryotes. Like multicellular eukaryotes, many protists encode multiple eIF4Es, but few functional studies have been undertaken except in parasitic species. An earlier phylogenetic analysis of protist eIF4Es indicated that they cannot be grouped within the three classes that describe eIF4E family members from multicellular organisms. Many more protist sequences are now available from which three clades can be recognized that are distinct from the plant/fungi/metazoan classes. Understanding of the protist eIF4Es will be facilitated as more sequences become available particularly for the under-represented opisthokonts and amoebozoa. Similarly, a better understanding of eIF4Es within each clade will develop as more functional studies of protist eIF4Es are completed.

  5. Diversity of Eukaryotic Translational Initiation Factor eIF4E in Protists

    PubMed Central

    Jagus, Rosemary; Bachvaroff, Tsvetan R.; Joshi, Bhavesh; Place, Allen R.

    2012-01-01

    The greatest diversity of eukaryotic species is within the microbial eukaryotes, the protists, with plants and fungi/metazoa representing just two of the estimated seventy five lineages of eukaryotes. Protists are a diverse group characterized by unusual genome features and a wide range of genome sizes from 8.2 Mb in the apicomplexan parasite Babesia bovis to 112,000-220,050 Mb in the dinoflagellate Prorocentrum micans. Protists possess numerous cellular, molecular and biochemical traits not observed in “text-book” model organisms. These features challenge some of the concepts and assumptions about the regulation of gene expression in eukaryotes. Like multicellular eukaryotes, many protists encode multiple eIF4Es, but few functional studies have been undertaken except in parasitic species. An earlier phylogenetic analysis of protist eIF4Es indicated that they cannot be grouped within the three classes that describe eIF4E family members from multicellular organisms. Many more protist sequences are now available from which three clades can be recognized that are distinct from the plant/fungi/metazoan classes. Understanding of the protist eIF4Es will be facilitated as more sequences become available particularly for the under-represented opisthokonts and amoebozoa. Similarly, a better understanding of eIF4Es within each clade will develop as more functional studies of protist eIF4Es are completed. PMID:22778692

  6. Contrasting perspectives on the Lava Creek Tuff eruption, Yellowstone, from new U–Pb and 40Ar/39Ar age determinations

    USGS Publications Warehouse

    Wilson, Colin J. N.; Stelten, Mark; Lowenstern, Jacob B.

    2018-01-01

    The youngest major caldera-forming event at Yellowstone was the ~ 630-ka eruption of the Lava Creek Tuff. The tuff as mapped consists of two major ignimbrite packages (members A and B), linked to widespread coeval fall deposits and formation of the Yellowstone Caldera. Subsequent activity included emplacement of numerous rhyolite flows and domes, and development of two structurally resurgent domes (Mallard Lake and Sour Creek) that accommodate strain due to continual uplift/subsidence cycles. Uplifted lithologies previously mapped on and adjacent to Sour Creek dome were thought to include the ~ 2.08-Ma Huckleberry Ridge Tuff, cropping out beneath Lava Creek Tuff members A and B. Mapped outcrops of this Huckleberry Ridge Tuff material were sampled as welded ignimbrite (sample YR345) on Sour Creek dome, and at nearby Bog Creek as welded ignimbrite (YR311) underlain by an indurated lithic lag breccia containing blocks of another welded ignimbrite (YR324). Zircon near-rim U–Pb analyses from these samples yield weighted mean ages of 661 ± 13 ka (YR345: 95% confidence), 655 ± 11 ka (YR311), and 664 ± 15 ka (YR324) (combined weighted mean of 658.8 ± 6.6 ka). We also studied two samples of ignimbrite previously mapped as Huckleberry Ridge Tuff on the northeastern perimeter of the Yellowstone Caldera, ~ 12 km ENE of Sour Creek dome. Sanidines from these samples yield 40Ar/39Ar age estimates of 634.5 ± 6.8 ka (8YC-358) and 630.9 ± 4.1 ka (8YC-359). These age data show that all these units represent previously unrecognized parts of the Lava Creek Tuff and do not have any relationship to the Huckleberry Ridge Tuff. Our observations and data imply that the Lava Creek eruption was more complex than is currently assumed, incorporating two tuff units additional to those currently mapped, and which themselves are separated by a time break sufficient for cooling and some reworking. The presence of a lag breccia suggests that a source

  7. Yellowstone wolf (Canis lupus) denisty predicted by elk (Cervus elaphus) biomass

    USGS Publications Warehouse

    Mech, L. David; Barber-Meyer, Shannon

    2015-01-01

    The Northern Range (NR) of Yellowstone National Park (YNP) hosts a higher prey biomass density in the form of elk (Cervus elaphus L., 1758) than any other system of gray wolves (Canis lupus L., 1758) and prey reported. Therefore, it is important to determine whether that wolf–prey system fits a long-standing model relating wolf density to prey biomass. Using data from 2005 to 2012 after elk population fluctuations dampened 10 years subsequent to wolf reintroduction, we found that NR prey biomass predicted wolf density. This finding and the trajectory of the regression extend the validity of the model to prey densities 19% higher than previous data and suggest that the model would apply to wolf–prey systems of even higher prey biomass.

  8. Phylogenetic Resolution of Deep Eukaryotic and Fungal Relationships Using Highly Conserved Low-Copy Nuclear Genes

    PubMed Central

    Ren, Ren; Sun, Yazhou; Zhao, Yue; Geiser, David

    2016-01-01

    Abstract A comprehensive and reliable eukaryotic tree of life is important for many aspects of biological studies from comparative developmental and physiological analyses to translational medicine and agriculture. Both gene-rich and taxon-rich approaches are effective strategies to improve phylogenetic accuracy and are greatly facilitated by marker genes that are universally distributed, well conserved, and orthologous among divergent eukaryotes. In this article, we report the identification of 943 low-copy eukaryotic genes and we show that many of these genes are promising tools in resolving eukaryotic phylogenies, despite the challenges of determining deep eukaryotic relationships. As a case study, we demonstrate that smaller subsets of ∼20 and 52 genes could resolve controversial relationships among widely divergent taxa and provide strong support for deep relationships such as the monophyly and branching order of several eukaryotic supergroups. In addition, the use of these genes resulted in fungal phylogenies that are congruent with previous phylogenomic studies that used much larger datasets, and successfully resolved several difficult relationships (e.g., forming a highly supported clade with Microsporidia, Mitosporidium and Rozella sister to other fungi). We propose that these genes are excellent for both gene-rich and taxon-rich analyses and can be applied at multiple taxonomic levels and facilitate a more complete understanding of the eukaryotic tree of life. PMID:27604879

  9. DNA N(6)-methyladenine: a new epigenetic mark in eukaryotes?

    PubMed

    Luo, Guan-Zheng; Blanco, Mario Andres; Greer, Eric Lieberman; He, Chuan; Shi, Yang

    2015-12-01

    DNA N(6)-adenine methylation (N(6)-methyladenine; 6mA) in prokaryotes functions primarily in the host defence system. The prevalence and significance of this modification in eukaryotes had been unclear until recently. Here, we discuss recent publications documenting the presence of 6mA in Chlamydomonas reinhardtii, Drosophila melanogaster and Caenorhabditis elegans; consider possible roles for this DNA modification in regulating transcription, the activity of transposable elements and transgenerational epigenetic inheritance; and propose 6mA as a new epigenetic mark in eukaryotes.

  10. Population viability of Arctic grayling in the Gibbon River, Yellowstone National Park

    USGS Publications Warehouse

    Steed, Amber C.; Zale, Alexander V.; Koel, Todd M.; Kalinowski, Steven T.

    2010-01-01

    The fluvial Arctic grayling Thymallus arcticus is restricted to less than 5% of its native range in the contiguous United States and was relisted as a category 3 candidate species under the U.S. Endangered Species Act in 2010. Although fluvial Arctic grayling of the lower Gibbon River, Yellowstone National Park, Wyoming, were considered to have been extirpated by 1935, anglers and biologists have continued to report catching low numbers of Arctic grayling in the river. Our goal was to determine whether a viable population of fluvial Arctic grayling persisted in the Gibbon River or whether the fish caught in the river were downstream emigrants from lacustrine populations in headwater lakes. We addressed this goal by determining relative abundances, sources, and evidence for successful spawning of Arctic grayling in the Gibbon River. During 2005 and 2006, Arctic grayling comprised between 0% and 3% of the salmonid catch in riverwide electrofishing (mean < 1%; SE < 1%) and snorkeling (mean = 1%; SE = 1%) surveys; Arctic grayling constituted 0–14% of the salmonid catch obtained by targeted angling (3 of 22 fish; mean = 4%; SE = 5%). Low values of the genetic differentiation index (F ST = 0.0021 ± 0.002 [mean ± 95% confidence interval]) between headwater lake and river Arctic grayling indicated that fish from throughout the Gibbon River system probably belonged to the same population. Back-calculated lengths at most ages were similar among all fish, and successful spawning within the Gibbon River below the headwater lakes was not documented. Few Arctic grayling adults and no fry were detected in the Gibbon River, implying that a reproducing fluvial population does not exist there. These findings have implications for future Endangered Species Act considerations and management of fluvial Arctic grayling within and outside of Yellowstone National Park. Our comprehensive approach is broadly applicable to the management of sparsely detected aquatic species worldwide.

  11. Eukaryotic microbes, principally fungi and labyrinthulomycetes, dominate biomass on bathypelagic marine snow

    PubMed Central

    Bochdansky, Alexander B; Clouse, Melissa A; Herndl, Gerhard J

    2017-01-01

    In the bathypelagic realm of the ocean, the role of marine snow as a carbon and energy source for the deep-sea biota and as a potential hotspot of microbial diversity and activity has not received adequate attention. Here, we collected bathypelagic marine snow by gentle gravity filtration of sea water onto 30 μm filters from ~1000 to 3900 m to investigate the relative distribution of eukaryotic microbes. Compared with sediment traps that select for fast-sinking particles, this method collects particles unbiased by settling velocity. While prokaryotes numerically exceeded eukaryotes on marine snow, eukaryotic microbes belonging to two very distant branches of the eukaryote tree, the fungi and the labyrinthulomycetes, dominated overall biomass. Being tolerant to cold temperature and high hydrostatic pressure, these saprotrophic organisms have the potential to significantly contribute to the degradation of organic matter in the deep sea. Our results demonstrate that the community composition on bathypelagic marine snow differs greatly from that in the ambient water leading to wide ecological niche separation between the two environments. PMID:27648811

  12. Taming a wild geothermal research well in yellowstone national park

    USGS Publications Warehouse

    Fournier, Robert O.; Pisto, Larry M.; Howell, Bruce B.; Hutchnson, Roderick A.; ,

    1993-01-01

    In November 1992 the valve at the top of a U.S. Geological Survey drill hole in Yellowstone National Park parted from the casting as a result of corrosion. This allowed uncontrolled venting of boiling water and steam from the well at an estimated liquid flow rate of about 25-50 gallons per minute. A flow diverter assembly was designed, fabricated and installed on the well within 16 days, which allowed drill rods to be safely stripped into the well through on annular Blow-Out Preventer. Once this was accomplished it was a relatively routine matter to set a packer in the casting and cement the well shut permanently. The drill hole was brought under control and cemented shut within 18 days of the wellhead failure at a total cost of $47,066, which was about $5,000 less than anticipated.

  13. Tandem Affinity Purification of Protein Complexes from Eukaryotic Cells.

    PubMed

    Ma, Zheng; Fung, Victor; D'Orso, Iván

    2017-01-26

    The purification of active protein-protein and protein-nucleic acid complexes is crucial for the characterization of enzymatic activities and de novo identification of novel subunits and post-translational modifications. Bacterial systems allow for the expression and purification of a wide variety of single polypeptides and protein complexes. However, this system does not enable the purification of protein subunits that contain post-translational modifications (e.g., phosphorylation and acetylation), and the identification of novel regulatory subunits that are only present/expressed in the eukaryotic system. Here, we provide a detailed description of a novel, robust, and efficient tandem affinity purification (TAP) method using STREP- and FLAG-tagged proteins that facilitates the purification of protein complexes with transiently or stably expressed epitope-tagged proteins from eukaryotic cells. This protocol can be applied to characterize protein complex functionality, to discover post-translational modifications on complex subunits, and to identify novel regulatory complex components by mass spectrometry. Notably, this TAP method can be applied to study protein complexes formed by eukaryotic or pathogenic (viral and bacterial) components, thus yielding a wide array of downstream experimental opportunities. We propose that researchers working with protein complexes could utilize this approach in many different ways.

  14. The first eukaryote cell: an unfinished history of contestation.

    PubMed

    O'Malley, Maureen A

    2010-09-01

    The eukaryote cell is one of the most radical innovations in the history of life, and the circumstances of its emergence are still deeply contested. This paper will outline the recent history of attempts to reveal these origins, with special attention to the argumentative strategies used to support claims about the first eukaryote cell. I will focus on two general models of eukaryogenesis: the phagotrophy model and the syntrophy model. As their labels indicate, they are based on claims about metabolic relationships. The first foregrounds the ability to consume other organisms; the second the ability to enter into symbiotic metabolic arrangements. More importantly, however, the first model argues for the autogenous or self-generated origins of the eukaryote cell, and the second for its exogenous or externally generated origins. Framing cell evolution this way leads each model to assert different priorities in regard to cell-biological versus molecular evidence, cellular versus environmental influences, plausibility versus evolutionary probability, and irreducibility versus the continuity of cell types. My examination of these issues will conclude with broader reflections on the implications of eukaryogenesis studies for a philosophical understanding of scientific contestation. Copyright © 2010 Elsevier Ltd. All rights reserved.

  15. Translational Control of Viral Gene Expression in Eukaryotes

    PubMed Central

    Gale, Michael; Tan, Seng-Lai; Katze, Michael G.

    2000-01-01

    As obligate intracellular parasites, viruses rely exclusively on the translational machinery of the host cell for the synthesis of viral proteins. This relationship has imposed numerous challenges on both the infecting virus and the host cell. Importantly, viruses must compete with the endogenous transcripts of the host cell for the translation of viral mRNA. Eukaryotic viruses have thus evolved diverse mechanisms to ensure translational efficiency of viral mRNA above and beyond that of cellular mRNA. Mechanisms that facilitate the efficient and selective translation of viral mRNA may be inherent in the structure of the viral nucleic acid itself and can involve the recruitment and/or modification of specific host factors. These processes serve to redirect the translation apparatus to favor viral transcripts, and they often come at the expense of the host cell. Accordingly, eukaryotic cells have developed antiviral countermeasures to target the translational machinery and disrupt protein synthesis during the course of virus infection. Not to be outdone, many viruses have answered these countermeasures with their own mechanisms to disrupt cellular antiviral pathways, thereby ensuring the uncompromised translation of virion proteins. Here we review the varied and complex translational programs employed by eukaryotic viruses. We discuss how these translational strategies have been incorporated into the virus life cycle and examine how such programming contributes to the pathogenesis of the host cell. PMID:10839817

  16. Revised ages for tuffs of the Yellowstone Plateau volcanic field: Assignment of the Huckleberry Ridge Tuff to a new geomagnetic polarity event

    USGS Publications Warehouse

    Lanphere, M.A.; Champion, D.E.; Christiansen, R.L.; Izett, G.A.; Obradovich, J.D.

    2002-01-01

    40Ar/39Ar ages were determined on the three major ash-flow tuffs of the Yellowstone Plateau volcanic field in the region of Yellowstone National Park in order to improve the precision of previously determined ages. Total-fusion and incremental-heating ages of sanidine yielded the following mean ages: Huckleberry Ridge Tuff-2.059 ?? 0.004 Ma; Mesa Falls Tuff-1.285 ?? 0.004 Ma; and Lava Creek Tuff-0.639 ?? 0.002 Ma. The Huckleberry Ridge Tuff has a transitional magnetic direction and has previously been related to the Reunion Normal-Polarity Subchron. Dating of the Reunion event has been reviewed and its ages have been normalized to a common value for mineral standards. The age of the Huckleberry Ridge Tuff is significantly younger than lava flows of the Reunion event on Re??union Island, supporting other evidence for a normal-polarity event younger than the Reunion event.

  17. Evolution of eukaryotic microbial pathogens via covert sexual reproduction

    PubMed Central

    Heitman, Joseph

    2010-01-01

    Sexual reproduction enables eukaryotic organisms to re-assort genetic diversity and purge deleterious mutations, producing better-fit progeny. Sex arose early and pervades eukaryotes. Fungal and parasite pathogens once thought asexual have maintained cryptic sexual cycles, including unisexual or parasexual reproduction. As pathogens become niche and host-adapted, sex appears to specialize to promote inbreeding and clonality yet maintain out-crossing potential. During self-fertile sexual modes, sex itself may generate genetic diversity de novo. Mating-type loci govern fungal sexual identity; how parasites establish sexual identity is unknown. Comparing and contrasting fungal and parasite sex promises to reveal how microbial pathogens evolved and are evolving. PMID:20638645

  18. Population size estimation in Yellowstone wolves with error-prone noninvasive microsatellite genotypes.

    PubMed

    Creel, Scott; Spong, Goran; Sands, Jennifer L; Rotella, Jay; Zeigle, Janet; Joe, Lawrence; Murphy, Kerry M; Smith, Douglas

    2003-07-01

    Determining population sizes can be difficult, but is essential for conservation. By counting distinct microsatellite genotypes, DNA from noninvasive samples (hair, faeces) allows estimation of population size. Problems arise because genotypes from noninvasive samples are error-prone, but genotyping errors can be reduced by multiple polymerase chain reaction (PCR). For faecal genotypes from wolves in Yellowstone National Park, error rates varied substantially among samples, often above the 'worst-case threshold' suggested by simulation. Consequently, a substantial proportion of multilocus genotypes held one or more errors, despite multiple PCR. These genotyping errors created several genotypes per individual and caused overestimation (up to 5.5-fold) of population size. We propose a 'matching approach' to eliminate this overestimation bias.

  19. Illuminating the Voluminous Subsurface Structures of Old Faithful Geyser, Yellowstone National Park

    NASA Astrophysics Data System (ADS)

    Hurwitz, Shaul; Shelly, David R.

    2017-10-01

    Old Faithful geyser in Yellowstone National Park has attracted scientific research for almost a century and a half. Temperature and pressure measurements and video recordings in the geyser's conduit led to proposals of many quantitative eruption models. Nevertheless, information on the processes that initiate the geyser's eruption in the subsurface remained limited. Two new studies, specifically Wu et al. (2017) and Ward and Lin (2017), take advantage of recent developments in seismic data acquisition technology and processing methods to illuminate subsurface structures. Using a dense array of three-component nodal geophones, these studies delineate subsurface structures on a scale larger than previously realized, which exert control on the spectacular eruptions of Old Faithful geyser.

  20. Diversity patterns of microbial eukaryotes mirror those of bacteria in Antarctic cryoconite holes.

    PubMed

    Sommers, Pacifica; Darcy, John L; Gendron, Eli M S; Stanish, Lee F; Bagshaw, Elizabeth A; Porazinska, Dorota L; Schmidt, Steven K

    2018-01-01

    Ice-lidded cryoconite holes on glaciers in the Taylor Valley, Antarctica, provide a unique system of natural mesocosms for studying community structure and assembly. We used high-throughput DNA sequencing to characterize both microbial eukaryotic communities and bacterial communities within cryoconite holes across three glaciers to study similarities in their spatial patterns. We expected that the alpha (phylogenetic diversity) and beta (pairwise community dissimilarity) diversity patterns of eukaryotes in cryoconite holes would be related to those of bacteria, and that they would be related to the biogeochemical gradient within the Taylor Valley. We found that eukaryotic alpha and beta diversity were strongly related to those of bacteria across scales ranging from 140 m to 41 km apart. Alpha diversity of both was significantly related to position in the valley and surface area of the cryoconite hole, with pH also significantly correlated with the eukaryotic diversity. Beta diversity for both bacteria and eukaryotes was significantly related to position in the valley, with bacterial beta diversity also related to nitrate. These results are consistent with transport of sediments onto glaciers occurring primarily at local scales relative to the size of the valley, thus creating feedbacks in local chemistry and diversity. © FEMS 2017. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.