bluuebunny/crossref_metadata_2025_split huggingface dataset:
Genetic Architecture of Ethanol-Responsive Transcriptome Variation in Saccharomyces cerevisiae Strains
Authors: Lewis Jeffrey A , Broman Aimee T , Will Jessica , Gasch Audrey P 
Published: June 2014

Abstract
Natural variation in gene expression is pervasive within and between species, and it likely explains a significant fraction of phenotypic variation between individuals. Phenotypic variation in acute systemic responses can also be leveraged to reveal physiological differences in how individuals perceive and respond to environmental perturbations. We previously found extensive variation in the transcriptomic response to acute ethanol exposure in two wild isolates and a common laboratory strain of Saccharomyces cerevisiae. Many expression differences persisted across several modules of coregulated genes, implicating trans-acting systemic differences in ethanol sensing and/or response. Here, we conducted expression QTL mapping of the ethanol response in two strain crosses to identify the genetic basis for these differences. To understand systemic differences, we focused on “hotspot” loci that affect many transcripts in trans. Candidate causal regulators contained within hotspots implicate upstream regulators as well as downstream effectors of the ethanol response. Overlap in hotspot targets revealed additive genetic effects of trans-acting loci as well as “epi-hotspots,” in which epistatic interactions between two loci affected the same suites of downstream targets. One epi-hotspot implicated interactions between Mkt1p and proteins linked to translational regulation, prompting us to show that Mkt1p localizes to P bodies upon ethanol stress in a strain-specific manner. Our results provide a glimpse into the genetic architecture underlying natural variation in a stress response and present new details on how yeast respond to ethanol stress.
Migration behavior of plutonium affected by ferrous ion in compacted bentonite by using electrochemical technique
Authors: Akiyama Daisuke , Idemitsu Kazuya , Inagaki Yaohiro , Arima Tatsumi , Konashi Kenji , Koyama Shinichi 
Published: June 2014

ABSTRACTThe migration behavior of plutonium is expected to be affected by the corrosion products of carbon steel in compacted bentonite at high-level waste repositories. Electrochemical experiments were carried out to simulate the reducing environment created by ferrous iron ions in equilibrium with anoxic corrosion products of iron. The concentration profiles of plutonium could be described by the convection -dispersion equation to obtain two migration parameters: apparent migration velocity Va and apparent dispersion coefficient Da. The apparent migration velocity was evaluated within 1 nm/s and was found to be independent of the experiment duration and the dry density of bentonite in the interval 0.8-1.4 Mg/m3. The apparent dispersion coefficient increased with the experiment duration at a dry density of 1.4 Mg/m3. The results for other dry densities also showed the same trend. These findings indicate that plutonium migration likely starts after ferrous ions reach the plutonium, in other words, the reducing environment due to ferrous ions could change the chemical form of plutonium and/or the characteristics of compacted bentonite. The apparent diffusion coefficient was estimated to be around 0.5 to 2.2 µm2/s and increased with decreasing the dry density of bentonite.
Modeling of an in-situ diffusion experiment in granite at the Grimsel Test Site
Authors: Soler Josep M. , Landa Jiri , Havlova Vaclava , Tachi Yukio , Ebina Takanori , Sardini Paul , Siitari-Kauppi Marja , Martin Andrew J. 
Published: June 2014

ABSTRACTMatrix diffusion is a key process for radionuclide retention in crystalline rocks. Within the LTD project (Long-Term Diffusion), an in-situ diffusion experiment in unaltered non-fractured granite was performed at the Grimsel Test Site (www.grimsel.com, Switzerland). The tracers included 3H as HTO, 22Na+, 134Cs+ and 131I- with stable I- as carrier.The dataset (except for 131I- because of complete decay) was analyzed with different diffusion-sorption models by different teams (NAGRA / IDAEA-CSIC, UJV-Rez, JAEA, Univ. Poitiers) using different codes, with the goal of obtaining effective diffusion coefficients (De) and porosity (ϕ) or rock capacity (α) values. A Borehole Disturbed Zone (BDZ), which was observed in the rock profile data for 22Na+ and 134Cs+, had to be taken into account to fit the experimental observations. The extension of the BDZ (1-2 mm) was about the same magnitude as the mean grain size of the quartz and feldspar grains.De and α values for the different tracers in the BDZ are larger than the respective values in the bulk rock. Capacity factors in the bulk rock are largest for Cs+ (strong sorption) and smallest for 3H (no sorption). However, 3H seems to display large α values in the BDZ. This phenomenon will be investigated in more detail in a second test starting in 2013.
Effects of Native Herbs and Light on Garlic Mustard (Alliaria petiolata) Invasion
Authors: Phillips-Mao Laura , Larson Diane L. , Jordan Nicholas R. 
Published: June 2014

AbstractThe degree to which invasive species drive or respond to environmental change has important implications for conservation and invasion management. Often characterized as a driver of change in North American woodlands, the invasive herb garlic mustard may instead respond to declines in native plant cover and diversity. We tested effects of native herb cover, richness, and light availability on garlic mustard invasion in a Minnesota oak woodland. We planted 50 garlic mustard seeds into plots previously planted with 0 to 10 native herb species. We measured garlic mustard seedling establishment, survival to rosette and adult stages, and average (per plant) and total (per plot) biomass and silique production. With the use of structural equation models, we analyzed direct, indirect, and net effects of native cover, richness, and light on successive garlic mustard life stages. Native plant cover had a significant negative effect on all life stages. Species richness had a significant positive effect on native cover, resulting in indirect negative effects on all garlic mustard stages, and net negative effects on adult numbers, total biomass, and silique production. Light had a strong negative effect on garlic mustard seedling establishment and a positive effect on native herb cover, resulting in significant negative net effects on garlic mustard rosette and adult numbers. However, light's net effect on total garlic mustard biomass and silique production was positive; reproductive output was high even in low-light/high-cover conditions. Combined effects of cover, richness, and light suggest that native herbs provide biotic resistance to invasion by responding to increased light availability and suppressing garlic mustard responses, although this resistance may be overwhelmed by high propagule pressure. Garlic mustard invasion may occur, in part, in response to native plant decline. Restoring native herbs and controlling garlic mustard seed production may effectively reduce garlic mustard spread and restore woodland diversity.
Is Chinese Tallowtree, Triadica sebifera, an Appropriate Target for Biological Control in the United States?
Authors: Wheeler Gregory S. , Ding Jianqing 
Published: June 2014

AbstractBiological control is one of the most common approaches used to manage invasive weeds of wetlands and other natural areas. Before candidate agents can be released, research is conducted to support biological control, which can be protracted and expensive, leading to a scientific and potentially lengthy regulatory review. To increase biological control safety, efficacy, and transparency, we suggest that during the early phases of a weed project, the feasibility of the invasive plant as a target should be studied explicitly. Our purpose here is to summarize information of an important invasive weed that can serve to judge whether the project is appropriate. Chinese tallowtree, Triadica sebifera, is one of the worst invasive species invading coastal wetlands and other riparian areas of the southeastern United States. Current management practices have not controlled the spread of this weed into these sensitive habitats. Initial surveys in the plant's native Chinese range for potential biological control agents have recovered several herbivore species that could be developed. These potential agents include defoliators, root and foliage feeders, and gall formers, whose biology, apparent host specificity, and impacts on plant fitness suggest that biological control offers great promise against Chinese tallowtree. When conducted during the initial phase of a project, this type of feasibility study can address potential conflicts of interest and risks, ultimately producing projects that are more effective and safer for biological control.
Tolerance of Lygodium microphyllum and L. japonicum Spores and Gametophytes to Freezing Temperature
Authors: Hutchinson Jeffrey T. , Langeland Kenneth A. 
Published: June 2014

AbstractOld World climbing fern (OWCF) spores had lower germination rates (P = 0.0072) after being frozen for ≥ 3 h compared to < 3 h, and were highly susceptible to freezing periods ≥ 6 h with a 5.8- to 13.3-fold reduction in spore germination compared to controls. Freezing temperature did not affect germination of Japanese climbing fern (JCF) spores compared to controls (P = 0.32). OWCF gametophytes had reduced survival at all exposures to freezing temperatures compared to controls (P < 0.0001), and had < 0.5% survival for exposure times ≥ 3 h. The gametophytes of JCF had reduced survival at exposures to freezing temperatures ≥ 1 h (P < 0.0001) compared to controls. JCF gametophyte survival was 52.5% at 3-h exposure time, but was reduced to ≤ 0.1% at exposure times ≥ 6 h. All OWCF sporophytes exhibited 100% necrosis for all exposure times 24 h postexposure, but new growth from resprouts was observed for exposure time ≤ 6 h at 6 mo postfreezing. OWCF sporophytes' dry weight biomass was greatly reduced for all exposure times compared to controls (P < 0.0001). Results with nonlinear regression (P < 0.0001, R2 = 0.92) indicated that a single freeze for 2.4 h at −2.2 C reduced OWCF dry weight biomass to 0.01 g, a 10-fold reduction, at 6 mo postfreezing. These results indicate that JCF spores and gametophytes are more tolerant of longer exposure periods to freezing temperatures than OWCF, but OWCF exhibited the potential to spread further into northern Florida.
Medusahead Ecology and Management: California Annual Grasslands to the Intermountain West
Authors: Nafus Aleta M. , Davies Kirk W. 
Published: June 2014

AbstractThe spread of medusahead across the western United States has severe implications for a wide range of ecosystem services. Medusahead invasion reduces biodiversity, wildlife habitat and forage production, and often leads to increased fire frequency and restoration costs. Medusahead is problematic in the Intermountain West and California Annual Grasslands. The last review of medusahead ecology and management was completed 20 years ago. Since the last review, there have been scientific advances in medusahead management suggesting a significant need to develop an up-to-date synthesis. Medusahead continues to pose a serious threat to rangeland ecosystems. In this synthesis, we present new information regarding the ecology of medusahead, suggest a framework for managing medusahead based on invasion level, and identify research needs to further improve management of this invasive annual grass. Success of different management practices varies between the Intermountain West and California Annual Grasslands, signifying that the best management practices are those specifically tailored with consideration of climate, soil, plant community characteristics, and management objectives. Prevention and control treatments that are useful in the Intermountain West may not be practical or effective in the California Annual Grasslands and vice-versa.
Genetic Diversity of Biofuel and Naturalized Napiergrass (Pennisetum purpureum)
Authors: López Yolanda , Seib Jeffery , Woodard Kenneth , Chamusco Karen , Sollenberger Lynn , Gallo Maria , Flory S. Luke , Chase Christine 
Published: June 2014

AbstractBiofuel crops such as napiergrass possess traits characteristic of invasive plant species, raising concern that biofuels might escape cultivation and invade surrounding agricultural and natural areas. Napiergrass biofuel types are being developed to have reduced invasion risk, but these might be cultivated in areas where naturalized populations of this species are already present. The successful management of napiergrass biofuel plantations will therefore require techniques to monitor for escaped biofuels as distinguished from existing naturalized populations. Here we used 20 microsatellite DNA markers developed for pearl millet to genotype 16 entries of napiergrass, including naturalized populations and accessions selected for biofuel traits. Use of the markers showed a clear genetic separation between the biofuel types and naturalized entries and revealed naturalized populations undergoing genetic isolation by distance. These findings demonstrated the utility of microsatellite marker transfer in the development of an important tool for managing the invasion risk of a potential biofuel crop.
Exploring the Feasibility of Sclerotium rolfsii VrNY as a Potential Bioherbicide for Control of Swallowworts (Vincetoxicum spp.)
Authors: Gibson Donna M. , Vaughan Richard H. , Biazzo Jeromy , Milbrath Lindsey R. 
Published: June 2014

AbstractPale swallowwort (PSW) and black swallowwort (BSW) are two viney milkweeds native to Europe that have increasingly become problematic and noxious weeds in eastern North America. An indigenous fungal isolate, Sclerotium rolfsii VrNY, was discovered causing significant mortality in a dense stand of PSW in a park in upstate New York. Although this fungus is a known pathogen with a broad host range, we evaluated the host potential of S. rolfsii VrNY on a limited range of related and nonrelated U.S. species as a critical first step to assess its suitability as a mycoherbicide for PSW and BSW. In addition, PSW and BSW produce the specific stereoisomer (−)-antofine, a compound with antimicrobial and phytotoxic activity that could inhibit the pathogen. Tests revealed this compound had no effect on S. rolfsii VrNY. This isolate caused significant mortality on all broadleaf plants tested (Asclepias syriaca, Asclepias curassavica, Apocynum cannabinum, Monarda fistulosa, Rudbeckia hirta, PSW, BSW) with the exception of Glycine max, and had no effect on the monocots Schizachyrium scoparium and Zea mays. Although these laboratory studies indicate that most broadleaf vegetation may be susceptible to the pathogen, S. rolfsii might have potential as a mycoherbicide in natural eco-niche environments where invasive PSW and BSW have already become the predominant vegetation. Further laboratory testing of S. rolfsii and limited field testing at the initial discovery site are needed in order to prevent premature rejection of this isolate as a potential management tool against these highly invasive weeds.
Modeling of Cyclic Hysteresis of Three-Phase Relative Permeability During Water-Alternating-Gas Injection
Authors: Shahverdi Hamidreza , Sohrabi Mehran 
Published: June 2014

Summary
Multiphase flow takes place in many petroleum reservoirs—in particular, mature fields and reservoirs under fluid [e.g., gas, water-alternating-gas (WAG)] injection. The numerical simulation of such reservoirs requires knowledge of flow functions (i.e., relative permeability and capillary pressure). Because experimental measurement of fluid permeabilities (in particular) under three-phase-flow conditions is very time-consuming and difficult, many correlations and models were developed and these are widely used instead of measured data.
In this study, we have used the results of a comprehensive set of WAG-injection coreflood experiments performed under different wettability conditions and core-permeability values to obtain relative permeabilites of oil, water, and gas under reservoir pressure and temperature. Three-phase relative permeability of each phase was obtained by history matching the measured production and differential pressure obtained in the laboratory. The results of the experiments revealed significant cyclic hysteresis effects in gas and oil relative permeability.
We proposed new formulations and methodology for the modeling of cyclic hysteresis of three-phase relative permeability during WAG injection. This technique is a direct method that uses measured three-phase kr data obtained from the first cycle of WAG injection to predict the relative permeability of the subsequent cycles. The integrity of this technique was validated against the three-phase kr data obtained from our WAG experiments.
We also assess the validity of the WAG-injection hysteresis model available in reservoir simulators against our three-phase relative permeability data to evaluate its performance.
Genetic Variability and Effect of Postflowering Drought on Stalk Sugar Content in Sorghum Mini Core Collection
Authors: Upadhyaya Hari D. , Dwivedi Sangam L. , Ramu Punna , Singh Shailesh K. , Singh Sube 
Published: June 2014

ABSTRACTSweet sorghum [Sorghum bicolor(L.) Moench] is an important food, feed, and biofuel crop worldwide. Its stalks are rich in sugar, largely influenced by environments and crop stage when the stalks are harvested. This study evaluated sorghum mini core collection for stalk sugar content on the basis of Brix, phenology, and agronomic traits. Accessions were first classified into five groups based on flowering to match crop phenology, which together with controls were separately grown in split‐plot design in vertisol under irrigated and drought stress conditions for two postrainy seasons. The main and interaction effects were significant for most of the traits. Drought stress significantly increased the mean Brix (12.11 to 26.76%) in four of the five groups of accessions. The mean Brix increased under drought in 169 accessions, decreased in one accession, while the remaining accessions were not affected. IS 13294, 13549, 23216, 23684, 24139, 24939, and 24953 significantly recorded greater mean Brix (14.0 to 15.2%) as compared with best control, IS 33844 (12.4%), across environments. However, these accessions had lower yields and lower 100‐seed weight. In contrast, IS 1004, 4698, 23891, and 28141 significantly outyielded IS 33844 by 11.7 to 22.7% and had almost the same Brix content (∼13%). A hierarchical tree diagram grouped these accessions into two distinct clusters: accessions with significantly greater Brix but lower yield and those with high yield but with Brix similar to IS 33844. The grouping also separated accessions largely on the basis of geographic regions and racial classification. The identified accessions are ideal resources for the development of cultivars with bioenergy traits.
Nitropropenyl Benzodioxole, An Anti-Infective Agent with Action as a Protein Tyrosine Phosphatase Inhibitor
Authors: White Kylie S. , Nicoletti Gina , Borland Robert 
Published: June 2014

We report on the activities of a broad spectrum antimicrobial compound,nitropropenyl benzodioxole (NPBD) which are of relevance to its potential as an anti-infective drug. These investigations support the proposal that a major mechanism of NPBD is action as a tyrosine mimetic, competitively inhibiting bacterial and fungal protein tyrosine phosphatases (PTP).NPBD did not affect major anti-bacterial drug targets, namely, ATP production, cell wall or cell membrane integrity, or transcription and translation of RNA. NPBD inhibited bacterial YopH and human PTP1B and not human CD45 in enzyme assays. NPBD inhibited PTP-associated bacterial virulence factors, namely, endospore formation inBacillus cereus,prodigiosin secretion inSerratia marcescens, motility inProteusspp., and adherence and invasion of mammalian cells byYersinia enterocolitica. NPBD acts intracellularly to inhibit the early development stages of theChlamydia trachomatisinfection cycle in mammalian cells known to involve sequestration of host cell PTPs. NPBD thus both kills pathogens and inhibits virulence factors relevant to early infection, making it a suitable candidate for development as an anti-infective agent, particularly for pathogens that enter through, or cause infections at, mucosal surfaces. Though much is yet to be understood about bacterial PTPs, they are proposed as suitable anti-infective targets and have been linked to agents similar to NPBD. The structural and functional diversity and heterogeneous distribution of PTPs across microbial species make them suitably selective targets for the development of both broadly active and pathogen-specific drugs.
Laboratory Comparison of Four Iron‐Based Filter Materials for Drainage Water Phosphate Treatment
Authors: Allred Barry J. , Racharaks Ratanachat 
Published: June 2014

ABSTRACT: A laboratory investigation evaluated phosphate (PO43–) drainage water treatment capabilities of four iron‐based filter materials. The iron‐based filter materials tested were zero‐valent iron (ZVI), porous iron composite (PIC), sulfur modified iron (SMI), and iron oxide/hydroxide (IOH). Only filter material retained on a 60‐mesh sieve (>0.25 mm) was used for evaluation. The laboratory investigation included saturated falling‐head hydraulic conductivity tests, contaminant removal or desorption/dissolution batch tests, and low‐to‐high flow rate saturated solute transport column tests. Each of the four iron‐based filter materials have sufficient water flow capacity as indicated by saturated hydraulic conductivity values that in most cases were greater than 1 × 10−2 cm/s. For the 1, 10, and 100 ppm PO43–‐P contaminant removal batch tests, each of the four iron‐based filter materials removed at least 95% of the PO43–‐P originally present. However, for the 1000 ppm PO43–‐P contaminant removal batch tests, IOH by far exhibited the greatest removal effectiveness (99% PO43–‐P removal), followed by SMI (72% PO43–‐P removal), then ZVI (62% PO43–‐P removal), and finally PIC (15% PO43–‐P removal). The desorption/dissolution batch test results, especially with respect to SMI and IOH, indicate that once PO43– is adsorbed/precipitated onto surfaces of iron‐based filter material particles, this PO43– becomes fixed and is then not readily desorbed/dissolved back into solution. The results from the column tests showed that regardless of low or high flow rate (contact time ranged from a few hours to a few minutes) and PO43– concentration (1 ppm or 10 ppm PO43–‐P), PIC, SMI, and IOH reduced PO43–‐P concentrations to below detection limits, while ZVI removed at least 90% of the influent PO43–‐P. Consequently, these laboratory results indicate that the ZVI, PIC, SMI, and IOH filter materials all exhibit promise for phosphate drainage water treatment.