Winery Wastewater Single Amplified Genomes
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA589250 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Single Amplified Mamiellales Genomes Genome sequencing and assembly
| PRJNA549236 | ENA
Project description:Is single-cell genomics a useful technique to address evolutionary questions? Insights from three Monosiga brevicollis single-cell amplified genomes
| PRJEB19365 | ENA
Project description:Heterotrophic bacteria such as those from the Roseobacter group and genus Alteromonas dominate the hadal zones of oceans; however, we know little about the genomic characteristics and potential metabolic adaptations of hadal trench-dwelling bacteria. Here, we report multiple single amplified genomes (SAGs) belonging to Roseobacter and Alteromonas, recovered from the hadal zone of the Mariana Trench.
| OEX011157 | NODE
Project description:Single-cell amplified genomes of uncultured choanoflagellates shed light into animal origins
| PRJEB31614 | ENA
Project description:Community profile of winery wastewater treatment plant
| PRJEB18425 | ENA
Project description:This study describes the combined sequencing of the genomes and transcriptomes of single blastomeres from mouse 8-cell stage embryos.
2015-04-20 | E-ERAD-381 | biostudies-arrayexpress
Project description:This study (McConnell, et al. Science 2012) used both SNP array and sequencing data to examine copy number variation in neuronal genomes. Encolsed here are the SNP Array data from the 42 fibroblasts, 19 human induced pluripotent stem cell (hiPSC)-derived neural progenitor cells (NPCs), and 40 hiPSC-derived neurons that were reported in the manuscript. Copy number analysis was performed on .CEL files using Partek Genomics Suite with a custom single cell reference file.
2013-12-04 | E-GEOD-51538 | biostudies-arrayexpress
Project description:Nucleic acids in wastewater provide a rich source of data for detection and surveillance of microbes. We have longitudinally collected 116 RNA samples from a wastewater treatment plant in Berlin/Germany, from March 2021 to July 2022, and 24 DNA samples from May to July 2022. We tracked human astroviruses, enteroviruses, noroviruses and adenoviruses over time to the level of strains or even individual nucleotide variations, showing how detailed human pathogens can be observed using wastewater. For respiratory pathogens, a broad enrichment panel enabled us to detect waves of RSV, influenza, or common cold coronaviruses in high agreement with clinical data. By applying a profile Hidden Markov Model-based search for novel viruses, we identified more than 100 thousand novel transcript assemblies likely not belonging to known virus species, thus substantially expanding our knowledge of virus diversity. Phylogenetic analysis is shown for bunyaviruses and parvoviruses. Finally, we identify Hundreds of novel protein sequences for CRISPR-associated proteins such as Transposase B, a class of small RNA-guided DNA editing enzymes. Taken together, we present a longitudinal and deep investigation into wastewater-derived genomic sequencing data that underlines the value of sewage surveillance for public health, planetary virome research, and biotechnological potential.
2023-04-13 | GSE228220 | GEO
Project description:Wastewater has been extensively studied along the years. However, these studies have been focused on the analysis of small molecules. There are no studies about the proteins present in wastewater and let alone an established method to study them. We propose a method for the study of the proteins in wastewater overcoming their low concentration and the interference of other molecules. Moreover, we differentiate between the proteins that are soluble and the ones in the particulate. This method is based on concentration, lysis and clean-up steps. The samples were analyzed afterward using liquid chromatography coupled to high-resolution mass spectrometry (HR-LC/MS) and the data searched with Proteome Discoverer. Thus, this complete method has allowed us to characterize the proteomic composition of different wastewater samples with a low volume.
2023-10-24 | PXD042445 | Pride
Project description:Bio-augmentation could be a promising strategy to improve processes for treatment and resource recovery from wastewater. In this study, the Gram-positive bacterium Bacillus subtilis was co-cultured with the microbial communities present in wastewater samples with high concentrations of nitrate or ammonium. Glucose supplementation (1%) was used to boost biomass growth in all wastewater samples. In anaerobic conditions, the indigenous microbial community bio-augmented with B. subtilis was able to rapidly remove nitrate from wastewater. In these conditions, B. subtilis overexpressed nitrogen assimilatory and respiratory genes including NasD, NasE, NarG, NarH, and NarI, which arguably accounted for the observed boost in denitrification. Next, we attempted to use the the ammonium- and nitrate-enriched wastewater samples bio-augmented with B. subtilis in the cathodic compartment of bioelectrochemical systems (BES) operated in anaerobic condition. B. subtilis only had low relative abundance in the microbial community, but bio-augmentation promoted the growth of Clostridium butyricum and C. beijerinckii, which became the dominant species. Both bio-augmentation with B. subtilis and electrical current from the cathode in the BES promoted butyrate production during fermentation of glucose. A concentration of 3.4 g/L butyrate was reached with a combination of cathodic current and bio-augmentation in ammonium-enriched wastewater. With nitrate-enriched wastewater, the BES effectively removed nitrate reaching 3.2 mg/L after 48 h. In addition, 3.9 g/L butyrate was produced. We propose that bio-augmentation of wastewater with B. subtilis in combination with bioelectrochemical processes could both boost denitrification in nitrate-containing wastewater and enable commercial production of butyrate from carbohydrate- containing wastewater, e.g. dairy industry discharges. These results suggest that B. subtilis bio-augmentation in our BES promotes simultaneous wastewater treatment and butyrate production.
2020-05-15 | GSE150480 | GEO