Ozone sensitivity of diverse maize genotypes is associated with differences in gene regulation, not gene content

The maize pangenome has demonstrate large amounts of presence/absence variation and it has been hypothesized that presence/absence variation contributes to stress response. To uncover whether the observed genetic variation in physiological response to elevated ozone (a secondary air pollutant that causes significant crop yield losses) concentration is due to variation in genic content, and/or variation in gene expression, we examine the impact of sustained elevated ozone concentration on the leaf tissue from 5 diverse maize inbred genotypes (B73, Mo17, Hp301, C123, NC338). Analysis of long reads from the transcriptomes of the 10 conditions found expressed genes in the leaf are part of the shared genome, with 94.5% of expressed genes from syntenic loci. Quantitative analysis of short reads from 120 plants (twelve from each condition) found limited transcriptional response to sustained ozone stress in the ozone resistant B73 genotype (151 genes), while more than 3,300 genes were significantly differentially expressed in the more sensitive NC338 genotype. The genes underpinning the divergence of B73 from the other 4 genotypes implicates ethylene signaling consistent with some findings in Arabidopsis. For the 82 of the 83 genes differentially expressed among all 5 genotypes and the 788 of 789 genes differentially expressed in 4 genotypes (excluding B73) in sensitivity to ozone is associated with oxidative stress tolerance being associated with a weaker response to a reactive oxygen species (ROS) signal and suggests that genetic variation in downstream processes is key to ozone tolerance.

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Characterisation of the global transcriptional response to heat shock and the impact of individual genetic variation

Genome Medicine ◽

10.1186/s13073-016-0345-5 ◽

2016 ◽

Vol 8 (1) ◽

Cited By ~ 2

Author(s):

Peter Humburg ◽

Narelle Maugeri ◽

Wanseon Lee ◽

Bert Mohr ◽

Julian C. Knight

Keyword(s):

Genetic Variation ◽

Heat Shock ◽

Transcriptional Response ◽

The Impact

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Comparing transcriptional responses to Fusarium crown rot in wheat and barley identified an important relationship between disease resistance and drought tolerance

BMC Plant Biology ◽

10.1186/s12870-020-02818-1 ◽

2021 ◽

Vol 21 (1) ◽

Author(s):

Z. Y. Su ◽

J. J. Powell ◽

S. Gao ◽

M. Zhou ◽

C. Liu

Keyword(s):

Drought Stress ◽

Drought Tolerance ◽

Crown Rot ◽

Differentially Expressed ◽

Transcriptional Responses ◽

Drought Treatment ◽

Crop Species ◽

Fusarium Crown Rot ◽

Important Relationship ◽

The Impact

Abstract Background Fusarium crown rot (FCR) is a chronic disease in cereal production worldwide. The impact of this disease is highly environmentally dependant and significant yield losses occur mainly in drought-affected crops. Results In the study reported here, we evaluated possible relationships between genes conferring FCR resistance and drought tolerance using two approaches. The first approach studied FCR induced differentially expressed genes (DEGs) targeting two barley and one wheat loci against a panel of genes curated from the literature based on known functions in drought tolerance. Of the 149 curated genes, 61.0% were responsive to FCR infection across the three loci. The second approach was a comparison of the global DEGs induced by FCR infection with the global transcriptomic responses under drought in wheat. This analysis found that approximately 48.0% of the DEGs detected one week following drought treatment and 74.4% of the DEGs detected three weeks following drought treatment were also differentially expressed between the susceptible and resistant isolines under FCR infection at one or more timepoints. As for the results from the first approach, the vast majority of common DEGs were downregulated under drought and expressed more highly in the resistant isoline than the sensitive isoline under FCR infection. Conclusions Results from this study suggest that the resistant isoline in wheat was experiencing less drought stress, which could contribute to the stronger defence response than the sensitive isoline. However, most of the genes induced by drought stress in barley were more highly expressed in the susceptible isolines than the resistant isolines under infection, indicating that genes conferring drought tolerance and FCR resistance may interact differently between these two crop species. Nevertheless, the strong relationship between FCR resistance and drought responsiveness provides further evidence indicating the possibility to enhance FCR resistance by manipulating genes conferring drought tolerance.

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Impact of aging on gene expression response to x-ray irradiation using mouse blood

Scientific Reports ◽

10.1038/s41598-021-89682-7 ◽

2021 ◽

Vol 11 (1) ◽

Author(s):

Constantinos G. Broustas ◽

Axel J. Duval ◽

Sally A. Amundson

Keyword(s):

Gene Expression ◽

Differentially Expressed Genes ◽

Differentially Expressed ◽

X Rays ◽

Gene Expression Response ◽

X Ray ◽

The Impact ◽

Old Mice ◽

Radiation Biodosimetry ◽

Young Mice

AbstractAs a radiation biodosimetry tool, gene expression profiling is being developed using mouse and human peripheral blood models. The impact of dose, dose-rate, and radiation quality has been studied with the goal of predicting radiological tissue injury. In this study, we determined the impact of aging on the gene expression profile of blood from mice exposed to radiation. Young (2 mo) and old (21 mo) male mice were irradiated with 4 Gy x-rays, total RNA was isolated from whole blood 24 h later, and subjected to whole genome microarray analysis. Pathway analysis of differentially expressed genes revealed young mice responded to x-ray exposure by significantly upregulating pathways involved in apoptosis and phagocytosis, a process that eliminates apoptotic cells and preserves tissue homeostasis. In contrast, the functional annotation of senescence was overrepresented among differentially expressed genes from irradiated old mice without enrichment of phagocytosis pathways. Pathways associated with hematologic malignancies were enriched in irradiated old mice compared with irradiated young mice. The fibroblast growth factor signaling pathway was underrepresented in older mice under basal conditions. Similarly, brain-related functions were underrepresented in unirradiated old mice. Thus, age-dependent gene expression differences should be considered when developing gene signatures for use in radiation biodosimetry.

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miRNA Expression Characterizes Histological Subtypes and Metastasis in Penile Squamous Cell Carcinoma

Cancers ◽

10.3390/cancers13061480 ◽

2021 ◽

Vol 13 (6) ◽

pp. 1480

Author(s):

Hiresh Ayoubian ◽

Joana Heinzelmann ◽

Sebastian Hölters ◽

Oybek Khalmurzaev ◽

Alexey Pryalukhin ◽

...

Keyword(s):

Microarray Data ◽

Expression Patterns ◽

Hpv Infection ◽

Differentially Expressed ◽

Histological Subtypes ◽

Specific Expression ◽

Tissue Samples ◽

Qrt Pcr ◽

Differentially Expressed Mirnas ◽

The Impact

Although microRNAs are described as promising biomarkers in many tumor types, little is known about their role in PSCC. Thus, we attempted to identify miRNAs involved in tumor development and metastasis in distinct histological subtypes considering the impact of HPV infection. In a first step, microarray analyses were performed on RNA from formalin-fixed, paraffin-embedded tumor (22), and normal (8) tissue samples. Microarray data were validated for selected miRNAs by qRT-PCR on an enlarged cohort, including 27 tumor and 18 normal tissues. We found 876 significantly differentially expressed miRNAs (p ≤ 0.01) between HPV-positive and HPV-negative tumor samples by microarray analysis. Although no significant differences were detected between normal and tumor tissue in the whole cohort, specific expression patterns occurred in distinct histological subtypes, such as HPV-negative usual PSCC (95 differentially expressed miRNAs, p ≤ 0.05) and HPV-positive basaloid/warty subtypes (247 differentially expressed miRNAs, p ≤ 0.05). Selected miRNAs were confirmed by qRT-PCR. Furthermore, microarray data revealed 118 miRNAs (p ≤ 0.01) that were significantly differentially expressed in metastatic versus non-metastatic usual PSCC. The lower expression levels for miR-137 and miR-328-3p in metastatic usual PSCC were validated by qRT-PCR. The results of this study confirmed that specific miRNAs could serve as potential diagnostic and prognostic markers in single PSCC subtypes and are associated with HPV-dependent pathways.

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Physiological and transcriptional response to drought stress among bioenergy grass Miscanthus species

Biotechnology for Biofuels ◽

10.1186/s13068-021-01915-z ◽

2021 ◽

Vol 14 (1) ◽

Author(s):

Jose J. De Vega ◽

Abel Teshome ◽

Manfred Klaas ◽

Jim Grant ◽

John Finnan ◽

...

Keyword(s):

Drought Stress ◽

Water Supply ◽

Biomass Yield ◽

Transcriptional Response ◽

Biomass Productivity ◽

Differentially Expressed ◽

Model Organisms ◽

Drought Conditions ◽

Multiple Copies ◽

Response To Water

Abstract Background Miscanthus is a commercial lignocellulosic biomass crop owing to its high biomass productivity, resilience and photosynthetic capacity at low temperature. These qualities make Miscanthus a particularly good candidate for temperate marginal land, where yields can be limited by insufficient or excessive water supply. Differences in response to water stress have been observed among Miscanthus species, which correlated to origin. In this study, we compared the physiological and molecular responses among Miscanthus species under excessive (flooded) and insufficient (drought) water supply in glasshouse conditions. Results A significant biomass loss was observed under drought conditions in all genotypes. M. x giganteus showed a lower reduction in biomass yield under drought conditions compared to the control than the other species. Under flooded conditions, biomass yield was as good as or better than control conditions in all species. 4389 of the 67,789 genes (6.4%) in the reference genome were differentially expressed during drought among four Miscanthus genotypes from different species. We observed the same biological processes were regulated across Miscanthus species during drought stress despite the DEGs being not similar. Upregulated differentially expressed genes were significantly involved in sucrose and starch metabolism, redox, and water and glycerol homeostasis and channel activity. Multiple copies of the starch metabolic enzymes BAM and waxy GBSS-I were strongly up-regulated in drought stress in all Miscanthus genotypes, and 12 aquaporins (PIP1, PIP2 and NIP2) were also up-regulated in drought stress across genotypes. Conclusions Different phenotypic responses were observed during drought stress among Miscanthus genotypes from different species, supporting differences in genetic adaption. The low number of DEGs and higher biomass yield in flooded conditions supported Miscanthus use in flooded land. The molecular processes regulated during drought were shared among Miscanthus species and consistent with functional categories known to be critical during drought stress in model organisms. However, differences in the regulated genes, likely associated with ploidy and heterosis, highlighted the value of exploring its diversity for breeding.

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Comprehensive Thermodynamic Analysis of the Humphrey Cycle for Gas Turbines with Pressure Gain Combustion

Energies ◽

10.3390/en11123521 ◽

2018 ◽

Vol 11 (12) ◽

pp. 3521 ◽

Cited By ~ 5

Author(s):

Panagiotis Stathopoulos

Keyword(s):

Gas Turbine ◽

Gas Turbines ◽

Combustion Process ◽

Ideal Gas ◽

Point Of View ◽

Pressure Gain Combustion ◽

Combustion Technology ◽

Secondary Air ◽

And Performance ◽

The Impact

Conventional gas turbines are approaching their efficiency limits and performance gains are becoming increasingly difficult to achieve. Pressure Gain Combustion (PGC) has emerged as a very promising technology in this respect, due to the higher thermal efficiency of the respective ideal gas turbine thermodynamic cycles. Up to date, only very simplified models of open cycle gas turbines with pressure gain combustion have been considered. However, the integration of a fundamentally different combustion technology will be inherently connected with additional losses. Entropy generation in the combustion process, combustor inlet pressure loss (a central issue for pressure gain combustors), and the impact of PGC on the secondary air system (especially blade cooling) are all very important parameters that have been neglected. The current work uses the Humphrey cycle in an attempt to address all these issues in order to provide gas turbine component designers with benchmark efficiency values for individual components of gas turbines with PGC. The analysis concludes with some recommendations for the best strategy to integrate turbine expanders with PGC combustors. This is done from a purely thermodynamic point of view, again with the goal to deliver design benchmark values for a more realistic interpretation of the cycle.

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Gender Differences in Association between Air Pollution and Daily Mortality in the Capital of the Green Lungs of Poland–Population-Based Study with 2,953,000 Person-Years of Follow-Up

Journal of Clinical Medicine ◽

10.3390/jcm9082351 ◽

2020 ◽

Vol 9 (8) ◽

pp. 2351

Author(s):

Łukasz Kuźma ◽

Krzysztof Struniawski ◽

Szymon Pogorzelski ◽

Hanna Bachórzewska-Gajewska ◽

Sławomir Dobrzycki

Keyword(s):

Public Health ◽

Gender Differences ◽

Air Pollution ◽

Air Quality ◽

Air Pollutant ◽

World Health ◽

The European Union ◽

Daily Mortality ◽

Male Population ◽

The Impact

(1) Introduction: air pollution is considered to be one of the main risk factors for public health. According to the European Environment Agency (EEA), air pollution contributes to the premature deaths of approximately 500,000 citizens of the European Union (EU), including almost 5000 inhabitants of Poland every year. (2) Purpose: to assess the gender differences in the impact of air pollution on the mortality in the population of the city of Bialystok—the capital of the Green Lungs of Poland. (3) Materials and Methods: based on the data from the Central Statistical Office, the number—and causes of death—of Białystok residents in the period 2008–2017 were analyzed. The study utilized the data recorded by the Provincial Inspectorate for Environmental Protection station and the Institute of Meteorology and Water Management during the analysis period. Time series regression with Poisson distribution was used in statistical analysis. (4) Results: A total of 34,005 deaths had been recorded, in which women accounted for 47.5%. The proportion of cardiovascular-related deaths was 48% (n = 16,370). An increase of SO2 concentration by 1-µg/m3 (relative risk (RR) 1.07, 95% confidence interval (CI) 1.02–1.12; p = 0.005) and a 10 °C decrease of temperature (RR 1.03, 95% CI 1.01–1.05; p = 0.005) were related to an increase in the number of daily deaths. No gender differences in the impact of air pollution on mortality were observed. In the analysis of the subgroup of cardiovascular deaths, the main pollutant that was found to have an effect on daily mortality was particulate matter with a diameter of 2.5 μm or less (PM2.5); the RR for 10-µg/m3 increase of PM2.5 was 1.07 (95% CI 1.02–1.12; p = 0.01), and this effect was noted only in the male population. (5) Conclusions: air quality and atmospheric conditions had an impact on the mortality of Bialystok residents. The main air pollutant that influenced the mortality rate was SO2, and there were no gender differences in the impact of this pollutant. In the male population, an increased exposure to PM2.5 concentration was associated with significantly higher cardiovascular mortality. These findings suggest that improving air quality, in particular, even with lower SO2 levels than currently allowed by the World Health Organization (WHO) guidelines, may benefit public health. Further studies on this topic are needed, but our results bring questions whether the recommendations concerning acceptable concentrations of air pollutants should be stricter, or is there a safe concentration of SO2 in the air at all.

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The impact of founder events and introductions on genetic variation in the muskox Ovibos moschatus in Sweden

ACTA THERIOLOGICA ◽

10.1007/s13364-011-0035-z ◽

2011 ◽

Vol 56 (4) ◽

pp. 305-314 ◽

Cited By ~ 6

Author(s):

Carl-Gustaf Thulin ◽

Linda Englund ◽

Göran Ericsson ◽

Göran Spong

Keyword(s):

Genetic Variation ◽

Ovibos Moschatus ◽

Founder Events ◽

The Impact

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Aerosol distribution over Europe: a model evaluation study with detailed aerosol microphysics

Atmospheric Chemistry and Physics ◽

10.5194/acp-8-1591-2008 ◽

2008 ◽

Vol 8 (6) ◽

pp. 1591-1607 ◽

Cited By ~ 36

Author(s):

B. Langmann ◽

S. Varghese ◽

E. Marmer ◽

E. Vignati ◽

J. Wilson ◽

...

Keyword(s):

Organic Carbon ◽

Rural Areas ◽

Regional Scale ◽

Evaluation Study ◽

Emission Data ◽

Aerosol Model ◽

Fire Emissions ◽

Elevated Ozone ◽

Emission Fluxes ◽

The Impact

Abstract. This paper summarizes an evaluation of model simulations with a regional scale atmospheric climate-chemistry/aerosol model called REMOTE, which has been extended by a microphysical aerosol module. Model results over Europe are presented and compared with available measurements in surface air focusing on the European distribution and variability of primary and secondary aerosols. Additionally, model results obtained with detailed aerosol microphysics are compared to those based on an aerosol bulk mass approach revealing the impact of dry deposition fluxes on atmospheric burden concentration. An improved determination of elevated ozone and sulfate concentrations could be achieved by considering a diurnal cycle in the anthropogenic emission fluxes. Deviation between modelled and measured organic carbon concentrations can be mainly explained by missing formation of secondary organic aerosols and deficiencies in emission data. Changing residential heating practices in Europe, where the use of wood is no longer restricted to rural areas, need to be considered in emission inventories as well as vegetation fire emissions which present a dominant source of organic carbon.

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To what extent does the environmental magnetism technique acts as a way of assessing the uptake of atmospheric particles by plants?

10.5194/egusphere-egu21-8263 ◽

2021 ◽

Author(s):

Sarah Letaïef ◽

Pierre Camps ◽

Thierry Poidras ◽

Patrick Nicol ◽

Delphine Bosch ◽

...

Keyword(s):

Air Quality ◽

Endemic Species ◽

Fine Particles ◽

Magnetic Measurements ◽

Deposition Velocity ◽

Environmental Magnetism ◽

Air Pollutant ◽

Atmospheric Pollutants ◽

Area Index ◽

The Impact

Numerous studies have already shown the possibility of tracing the sources, the compositions, and the concentration of atmospheric pollutants deposited on plant leaves. In environmental geochemistry, inter-element and isotope ratios from chemical element assays have been used for these purposes. Alternatively, environmental magnetism represents a quick and inexpensive asset that is increasingly used as a relative indicator for concentrations of air pollutant on bio accumulator surfaces such as plants. However, a fundamental issue is still pending: Do plants in urban areas represent a sink for fine particles that is sufficiently effective to improve air quality? This is a very topical issue because some studies have shown that the foliage can trap fine particles by different dry deposition processes, while other studies based on CFD models indicate that plant hedges in cities can hinder the atmospheric dispersion of pollutants and therefore increase pollution at the level of emission sources such as traffic. To date, no consensus was made because several factors not necessary well known must be taken into account, such as, PM concentration and size, prevailing wind, surface structures, epicuticular wax, to mention just a few examples. A first step toward the understanding of the impact of urban greens on air quality is the precise determination of the deposition velocity (Vd) parameter. This latter is specific for each species and it is most of the time underestimated in modeling-based studies by taking standard values. In that perspective, we built a wind tunnel (6 m long, 86 cm wide and 86 cm high) to perform analogical experiments on different endemic species. All parameters are controlled, i.e, the wind speed, the nature and the injection time of pollutants (Gasoline or Diesel exhausts, brakes or tires dust, etc&#8230;). We can provide the PM concentrations upwind and downwind of natural reconstituted hedges by two dustmeters (LOACs - M&#233;t&#233;oModem). Beforehand, parameters such as the hedge resistance (%) or the leaf area index (LAI) have been estimated for each studied specie to allow comparability between plants removal potential. The interest would ultimately combine PM concentration measured by size bins from the LOACs with magnetic measurements (ARM, IRM100mT, IRM300mT and SIRM) of plant leaves. The idea is to check whether it would be possible to precisely determine in situ the dust removal rate by urban greens with environmental magnetism measurements. Up to now, we have carried out on different endemic species such as Elaeagnus x ebbingei leaves and Mediterranean pine needles, the results of which will be presented.

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