North Eastern United States municipal landfill leachate microbial communities
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA900590 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| Other | ||||
| SRR22315501_1.fastq.gz | Fastqsanger.gz | |||
| SRR22315501_2.fastq.gz | Fastqsanger.gz | |||
| SRR22315502_1.fastq.gz | Fastqsanger.gz | |||
| SRR22315502_2.fastq.gz | Fastqsanger.gz |
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Project description:Landfill leachate water is often treated in a biological processing step. In most cases a stable operation of the industrial scale plants is controlled by sum parameters such as process relevant ion concentrations, dry matter concentration and dissolved oxygen concentration. A deeper understanding of the current status of the individual cell or the biocoenosis would help to understand malfunctions or the reason for inefficient plant performance. In a simple batch experimental setup, samples of two different conditions have been generated to unravel bacterial proteome changes in response to medium term lack of oxygen supply and landfill leachate addition. The first condition was an activated sludge sample condition from an industrial scale landfill leachate treatment plant with the process stages of nitrification and denitrification. After 45 days without aeration and with addition of leachate and carbon sources as fed batch, the second sample (condition 2) was taken. A comprehensive LC-MS/MS based protemic screen was performed aiming for the identification and quantification of waste water specific bacteria proteomes. To this end, a novel combination of two protein extraction methods has been established meeting the requirements for LC-MS/MS anaylsis. Around 600 proteins were identified of which 90 % were quantified in at least 3 replicates. Numerous essential proteins to maintain the cell redox homeostasis are overexpressed in the condition 1 which was aerated with oxygen and stressed by the ultrafiltration compared to condition 2, which was not aerated in a lab experiment. In addition, heat and cold shock proteins and two proteins related to the apoptosis of organisms (spermidine/putrescine transport system and apoptosis-inducing factor) were identified.
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Project description:We investigated the toxicity of soil samples derived from a former municipal landfill site in the South of the Netherlands, where a bioremediation project is running aiming at reusing the site for recreation. Both an organic soil extract and the original soil sample was investigated using the ISO standardised Folsomia soil ecotoxicological testing and gene expression analysis. The 28 day survival/reproduction test revealed that the ecologically more relevant original soil sample was more toxic than the organic soil extract. Microarray analysis showed that the more toxic soil samples induced gene regulatory changes in twice as less genes compared to the soil extract. Consequently gene regulatory changes were highly dependent on sample type, and were to a lesser extent caused by exposure level. An important biological process shared among the two sample types was the detoxification pathway for xenobiotics (biotransformation I, II and III) suggesting a link between compound type and observed adverse effects. Finally, we were able to retrieve a selected group of genes that show highly significant dose-dependent gene expression and thus were tightly linked with adverse effects on reproduction. Expression of four cytochrome P450 genes showed highest correlation values with reproduction, and maybe promising genetic markers for soil quality. However, a more elaborate set of environmental soil samples is needed to validate the correlation between gene expression induction and adverse phenotypic effects.
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Project description:We investigated the toxicity of soil samples derived from a former municipal landfill site in the South of the Netherlands, where a bioremediation project is running aiming at reusing the site for recreation. Both an organic soil extract and the original soil sample was investigated using the ISO standardised Folsomia soil ecotoxicological testing and gene expression analysis. The 28 day survival/reproduction test revealed that the ecologically more relevant original soil sample was more toxic than the organic soil extract. Microarray analysis showed that the more toxic soil samples induced gene regulatory changes in twice as less genes compared to the soil extract. Consequently gene regulatory changes were highly dependent on sample type, and were to a lesser extent caused by exposure level. An important biological process shared among the two sample types was the detoxification pathway for xenobiotics (biotransformation I, II and III) suggesting a link between compound type and observed adverse effects. Finally, we were able to retrieve a selected group of genes that show highly significant dose-dependent gene expression and thus were tightly linked with adverse effects on reproduction. Expression of four cytochrome P450 genes showed highest correlation values with reproduction, and maybe promising genetic markers for soil quality. However, a more elaborate set of environmental soil samples is needed to validate the correlation between gene expression induction and adverse phenotypic effects. paired reference design was used testing animals exposed to two concentrations of an environemntal soil sample and two concentrations of the subsequent soil extract. 4 biological replicates per condition containing 25 grams of soil and 10 23day-old animals per replicate.
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