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RNA Sequencing of Arabidopsis thaliana Seedlings after Non-Thermal Plasma-Seed Treatment Reveals Upregulation in Plant Stress and Defense Pathways

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The role of endogenous salicylic acid (SA) signalling cascades in plant responses to salt and oxidative stresses is unclear. Arabidopsis SA signalling mutants, namely npr1-5 (non-expresser of pathogenesis related gene1), which lacks NPR1-dependent SA signa ...

Oxford University Press2015

Do crosstalks with primary and secondary metabolism limit or stimulate the detoxification of xenobiotics?

Jean-Paul Schwitzguebel

Because plants are static and live in a competitive and sometimes hostile environment, they have evolved efficient mechanisms that protect them from abiotic and biotic stresses. These mechanisms include detoxification and sequestration of xenobiotic compou ...

2014

Principles of ChIP-seq Data Analysis Illustrated with Examples

Giovanna Ambrosini, Philipp Bucher, René Dreos

Chromatin immunoprecipitation (ChIP) followed by high-throughput sequencing (ChIP-seq) is a powerful method to determine how transcription factors and other chromatin-associated proteins interact with DNA in order to regulate gene transcription. A single C ...

Copicentro Granada S L2014

Coordinated Effects of Sequence Variation on DNA Binding, Chromatin Structure, and Transcription

Bart Deplancke, David Hacker, Sebastian Martin Waszak, Sunil Kumar Raghav, Nouria Hernandez, Gilles Udin, Alisa Yurovsky, Julien Bryois, Sarah Thurnheer

DNA sequence variation has been associated with quantitative changes in molecular phenotypes such as gene expression, but its impact on chromatin states is poorly characterized. To understand the interplay between chromatin and genetic control of gene regu ...

American Association for the Advancement of Science2013

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Pharmaceuticals constitute an important environmental issue for receiving waters. A holistic approach, taking into consideration the sources of these compounds (hospitals, domestic use), discharges (wastewater effluent, combined sewer overflows) and relate ...

Elsevier2013

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Plant growth is strongly influenced by the presence of neighbors that compete for light resources. In response to vegetational shading shade-intolerant plants such as Arabidopsis display a suite of developmental responses known as the shade-avoidance syndr ...

Wiley-Blackwell2012

Metamerism is a widespread feature of multicellular body plans; however, our understanding of the underlying mechanisms that generate these patterns is currently based on only a few model organisms. In particular, vertebrate embryos use a segmentation cloc ...

2012

Spatially and genetically distinct control of seed germination by phytochromes A and B

Christian Fankhauser

Phytochromes phyB and phyA mediate a remarkable developmental switch whereby, early upon seed imbibition, canopy light prevents phyB-dependent germination, whereas, later on, it stimulates phyA-dependent germination. Using a seed coat bedding assay where t ...

Cold Spring Harbor Lab Press, Publications Dept2012

Analysis of HIV-1 Expression Level and Sense of Transcription by High-Throughput Sequencing of the Infected Cell

Jacques Rougemont, Amalio Telenti

Next-generation sequencing offers an unprecedented opportunity to jointly analyze cellular and viral transcriptional activity without prerequisite knowledge of the nature of the transcripts. SupT1 cells were infected with a vesicular stomatitis virus G env ...

2011

From green to clean: options for phytoremediation and phytoextraction of organic pollutants

Jean-Paul Schwitzguebel

The use of green plants specifically chosen or tailored for the remediation of polluted soils and brownfields, the treatment of industrial wastewater or the removal of volatile organic compounds from indoor or outdoor air is becoming essential for sustaina ...

2010