Project description:Biochar is widely used in water remediation, but its application risks in water bodies have not yet been revealed. This project aims to reveal the potential of biochar in water remediation and its related environmental risks.
Project description:Mulberry (Morus atropurpurea) is an important economic woody tree with rapid growth rate and large biomass, which had great potential for heavy metals remediation. To further understand the mechanisms involved in cadmium accumulation and detoxification in mulberry, we carried out a transcriptomic study to get insights into the molecular mechanisms of the mulberry response to cadmium stress using RNA-seq analysis with BGISEQ-500.
Project description:we report the identification and sequences of the tRNAome of industrially relevant microorganism Lactococcus lactis Three Next Generation sequencing runs annotated as S1, S2 and S3 were performed. Cells were harvested at exponential phase and tRNA was isolated. S1 and S2 were spiked with Phe-tRNAGAA from yeast and Lys-tRNAUUU from E. coli prior to cell lysis. S3 was spiked with Phe-tRNAGAA from yeast and Lys-tRNAUUU from E. coli before the library preparation to estimate the possible loss of tRNA in the extraction process.
Project description:<p>Environmental co-contamination presents significant challenges. To tackle these, while microbial consortia offer advantages over single-strain approaches, such as functional redundancy and synergistic degradation, rationally designing effective synthetic microbiomes specifically for complex co-contamination scenarios remains a major challenge. Here, we utilized our advanced genome-scale metabolic modeling (GSMM) tool, SuperCC, to simulate the metabolic behavior of communities consisting of six isolated key strains under single- and multi-carbon source conditions, mimicking single-pollutant or co-contamination scenarios respectively. By integrating multi-omics data with metabolic modeling of cultured consortia, we systematically elucidated key strain interaction networks and adaptive strategies under co-contamination. This revealed that the specific secretory products of broad-spectrum resource-utilizing bacteria serve as key metabolites driving cooperation and highlighted the pivotal role of indigenous keystone strains in stabilizing and enhancing community function. Consequently, we propose a novel and rational paradigm for consortium design: DHP-Com (Degrader-Helper-Potentiator). Synthetic microbiomes constructed based on this framework exhibited enhanced ecological fitness (survival and growth) and, most importantly, substantially improved remediation performance across diverse co-contamination scenarios. Our findings advance the practical application of GSMM predictions to decipher intricate multi-pollutant/multi-strain interaction networks, offering a powerful rational framework and robust methodological tools for engineering multi-functional and effective synthetic microbiomes for complex environmental remediation.</p>
Project description:ngs2021_12_endomix-phe-gradient-Identify the physiological response of poplar to the presence of 8 Phenanthrene gradient concentration.-As part of the ANR EndOMiX project, we carried out an experiment with poplars (Populus canadensis: hybrid Populus deltoides x nigra) grown in soil with a gradient of contamination in Phenanthrene (PHE), we have 8 different concentrations of PHE, and 4 biological replicates (pots with independent plants). We harvested after 4 weeks of growth, the roots and leaves of the poplars from which the RNAs were extracted for sequencing.
2025-06-04 | GSE263776 | GEO
Project description:The impacts of actinomycetes combined with biochar and lime on soil remediation and the soil bacterial community under cadmium (Cd) contamination
Project description:Reveal the sequence characteristics of key genes of F-actin; RNAi technology was used to investigate the regulatory effect of F-actin gene on cadmium contamination of Pardosa pseudoannulata, and to elucidate the response mechanism of F-actin in regulating spiders to cadmium pollution.
Project description:Volatilization of lower-chlorinated polychlorinated biphenyls (LC-PCBs) from sediment poses health threats to nearby communities and ecosystems. Biodegradation combined with black carbon (BC) materials is an emerging approach to remove PCBs from sediment, but development of aerobic biofilms on BC for long-term, sustained LC-PCBs remediation is poorly understood. This work aimed to characterize cell enrichment and activity of biphenyl- and benzoate-grown Paraburkholderia xenovorans strain LB400 on various BCs. Biphenyl dioxygenase gene (bphA) abundance on four BC types demonstrated corn kernel biochar hosted at least four orders of magnitude more attached cells per gram than other feedstocks, and microscopic imaging revealed the attached live cell fraction was >1.5X more on corn kernel biochar than GAC. BC characteristics (i.e., sorption potential, surface area, pH) drove cell attachment differences. Reverse transcription qPCR indicated BC feedstocks significantly influenced bphA expression in attached cells. The bphA transcript-per-gene ratio of attached cells was >10-fold more than suspended cells, confirmed by transcriptomics. RNA-seq also demonstrated significant upregulation of biphenyl and benzoate degradation pathways on attached cells, revealing biofilm formation potential and cell-cell communication pathway connections. These novel findings demonstrate aerobic PCB-degrading cell abundance and activity could be tuned by adjusting BC feedstocks/ attributes to improve LC-PCBs biodegradation.
Project description:Cadmium is one of the widely used Heavy metals in commercial and industrial products and contributes to environmental contamination in urban settings. Heavy metal toxicity comes with a fitness cost to insects. Here we investigated the proteome of the malaria mosquito An. gambiae lava after multigenerational exposure to cadmium at physiologically relevant concentrations and observed the disregulation of larval immunity, energy metabolism, antioxidant enzymes among other biological processes.
2018-08-07 | MSV000082754 | MassIVE
Project description:biochar immobilized microbes to remediate contaminated soils