Dataset Information

Poplar root tandem mass spectrometry analyses in response to a contamination gradient of phenanthrene

ABSTRACT: This project provides tandem mass spectrometry data of root proteins extracted from samples of Populus x canadensis (hybrid of P. nigra x P. deltoides) grown in soil microcosms spiked with phenanthrene at different nominal concentration (0-100–200–400–700– 1000–1500–2000 mg PHE kg−1 dry weight.

INSTRUMENT(S):

ORGANISM(S): Populus Nigra X Populus X Canadensis

SUBMITTER: Jean ARMENGAUD

LAB HEAD: Jean ARMENGAUD

PROVIDER: PXD052621 | Pride | 2025-09-15

REPOSITORIES: Pride

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Publications

Comprehensive multi-omics integration to unravel poplar molecular responses to a phenanthrene contamination gradient.

Gallois Nicolas N Gréau Lilian L Zumsteg Julie J Huguet Stéphanie S Blaudez Damien D Villette Claire C Paysant-Le Roux Christine C Armengaud Jean J Heintz Dimitri D Alpha-Bazin Béatrice B Cébron Aurélie A

Journal of hazardous materials 20250603

Phytoremediation using trees has become popular due to its effectiveness and affordability, including for brownfield soils contaminated with polycyclic aromatic hydrocarbons (PAH). However, our understanding of how trees cope with exposure to PAHs is limited. In this study, we employed an innovative experimental design combining a contamination gradient of eight phenanthrene concentrations (0-2000 mg·kg⁻¹), a model PAH, with a comprehensive integrative multi-omics approach (transcriptomics, prot ...[more]

PMID: 40527209

Similar Datasets

Project description:Polycyclic Aromatic Hydrocarbons (PAHs) continue to cause environmental challenges due to their release in the environment by a great variety of anthropogenic activities and their accumulation in soil ecosystems. Here we studied the toxicological effect of the model PAH phenanthrene (Phe) on the soil invertebrate model Enchytraeus crypticus at the individual, tissue and molecular level. Organisms were exposed to Phe for 2 and 21 days to the (previously estimated) EC10 and EC50 (population reproduction over 3 weeks). Gene expression profiling did not reveal a typical Phe-induced biotransfor-mation signature, as it usually does in arthropods and vertebrates. Instead, we observed only general metabolic processes to be affected after 2 days of exposure, such as translation and ATP synthesis-coupled electron transport. Histological sections of tissues of 2-day exposed animals did not show any deviations from the control situation. In contrast, prolonged exposure up to 21 days showed histopathological effects: chloragogenous cells were highly vacuolated and hypertrophic. This was corroborated by differential expression of genes related to immune response and oxidative stress at the transcriptomic level. The data exemplify the complexity and species-specific features of PAH toxicity among soil invertebrate communities, which restricts read-across and extrapolation in the context of soil ecological risk assessment. The data presented in our manuscript is an exposure experiment where E. cryticus is exposed to phenanthrene EC10 and EC50 on reproduction for 2 and 21 days. A single channel, interwoven loop design was used to test animals. 4 biological replicates per condition were used containing 25 grams of soil and 5 - 7, adult old animals per replicate. The platform is a 4*180k Agilent platform containing some 86k E. crypticus probes in duplicate. However, only a subset of the probes (23k) was used for the analysis. To see which probes were used in the analysis see the raw data files control type column, only probes which are denoted with a 0 were used.

Project description:Background: Polycyclic aromatic hydrocarbons (PAHs) are toxic, widely-distributed, environmentally persistent, and carcinogenic byproducts of carbon-based fuel combustion. Previously, plant studies have shown that PAHs induce oxidative stress, reduce growth, and cause leaf deformation as well as tissue necrosis. To understand the transcriptional changes that occur during these processes, we performed microarray experiments on Arabidopsis thaliana L. under phenanthrene treatment, and compared the results to published Arabidopsis microarray data representing a variety of stress and hormone treatments. In addition, to probe hormonal aspects of PAH stress, we assayed transgenic ethylene-inducible reporter plants as well as ethylene pathway mutants under phenanthrene treatment. Results: Microarray results revealed numerous perturbations in signaling and metabolic pathways that regulate reactive oxygen species (ROS) and responses related to pathogen defense. A number of glutathione S-transferases that may tag xenobiotics for transport to the vacuole were upregulated. Comparative microarray analyses indicated that the phenanthrene response was closely related to other ROS conditions, including pathogen defense conditions. The ethylene-inducible transgenic reporters were activated by phenanthrene. Mutant experiments showed that PAH inhibits growth through an ethylene-independent pathway, as PAH-treated ethylene-insensitive etr1-4 mutants exhibited a greater growth reduction than WT. Further, phenanthrene-treated, constitutive ethylene signaling mutants had longer roots than the untreated control plants, indicating that the PAH inhibits parts of the ethylene signaling pathway. Conclusions: This study identified major physiological systems that participate in the PAH-induced stress response in Arabidopsis. At the transcriptional level, the results identify specific gene targets that will be valuable in finding lead compounds and engineering increased tolerance. Collectively, the results open a number of new avenues for researching and improving plant resilience and PAH phytoremediation.

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