Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: TiO2-based photocatalysis affecting aquatic microbiome (eukaryotic plankton community)

PROVIDER: PRJNA754602 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR15496120_1.fastq.gz	Fastqsanger.gz
	SRR15496120_2.fastq.gz	Fastqsanger.gz
	SRR15496121_1.fastq.gz	Fastqsanger.gz
	SRR15496121_2.fastq.gz	Fastqsanger.gz
	SRR15496122_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 48

Similar Datasets

Project description:TiO2-based photocatalysis affecting aquatic microbiome

| PRJNA754369 | ENA

High-throughput parallel imaging and single-cell transcriptomics of microbial eukaryotic plankton

Project description:In this study we applied MASC-seq (massive and parallel microarray sequencing, https://doi.org/10.1038/ncomms13182), a scRNA-seq method that facilitates sequencing of thousands of cells in parallel, and that couples microscope images with the single cell transcriptome data. For this method, fixed cells are spread over a microarray with 100 μm-sized spots of DNA capture probes with spot-specific indices. The cells are first imaged using a scanning microscope and then permeabilized, releasing their RNA out of the cells and bind to the probes on the array. cDNA is synthesized, harvested and sequenced, and, using the spot-specific barcode-sequences, cDNA sequences stemming from a specific spot (i.e., cell) can be linked to the microscope image of the corresponding cell. However, until now, the MASC-seq method has only been applied to mammalian cells. The aim of this study was to test and adapt the MASC-seq method for application on unicellular eukaryotic plankton. We applied and optimized the method on three cultured plankton representatives, abundant in communities of aquatic environments, Phaeodactylum tricornutum (a diatom, silica and polysaccharide cell walls 23), Heterocapsa sp. (a dinoflagellate, cellulose thecal plates 24) and Tetrahymena thermophila (a ciliate, lipid membrane 25) which all have different size and diverse cell surface structures common to plankton. We optimized several steps in the protocol to make it more suitable for planktonic cells and compared the results from MASC-seq generated single cell transcriptomes to bulk RNA sequencing.

2022-10-26 | E-MTAB-12261 | biostudies-arrayexpress

Project description:Eukaryotic plankton community in humic lakes

| PRJNA1004546 | ENA

Single-organism multimodal characterisation of eukaryotic plankton with Ukiyo-e-Seq

Project description:We used single-cell sequencing data and imaging to investigate Eukaryotic plankton from environmental marine samples collected from Coogee, NSW, Australia.

2024-08-18 | GSE274796 | GEO

All_Merged

Project description:Eukaryotic plankton community assembly and influencing factors

| PRJNA728881 | ENA

Morphine treatment induces distinct changes in the gut microbiome at day 3 post treatment

Project description:Opioids such as morphine have many beneficial properties as analgesics, however, opioids may induce multiple adverse gastrointestinal symptoms. We have recently demonstrated that morphine treatment results in significant disruption in gut barrier function leading to increased translocation of gut commensal bacteria. However, it is unclear how opioids modulate the gut homeostasis. By using a mouse model of morphine treatment, we studied effects of morphine treatment on gut microbiome. We characterized phylogenetic profiles of gut microbes, and found a significant shift in the gut microbiome and increase of pathogenic bacteria following morphine treatment when compared to placebo. In the present study, wild type mice (C57BL/6J) were implanted with placebo, morphine pellets subcutaneously. Fecal matter were taken for bacterial 16s rDNA sequencing analysis at day 3 post treatment. A scatter plot based on an unweighted UniFrac distance matrics obtained from the sequences at OTU level with 97% similarity showed a distinct clustering of the community composition between the morphine and placebo treated groups. By using the chao1 index to evaluate alpha diversity (that is diversity within a group) and using unweighted UniFrac distance to evaluate beta diversity (that is diversity between groups, comparing microbial community based on compositional structures), we found that morphine treatment results in a significant decrease in alpha diversity and shift in fecal microbiome at day 3 post treatment compared to placebo treatment. Taxonomical analysis showed that morphine treatment results in a significant increase of potential pathogenic bacteria. Our study shed light on effects of morphine on the gut microbiome, and its role in the gut homeostasis.

2018-04-16 | E-MTAB-5546 | biostudies-arrayexpress

Eukaryotic Plankton

Project description:Eukaryotic Plankton Metagenome

| PRJNA489499 | ENA

Project description:Multi-marker (18S V4 + 16S V4V5) metabarcoding of aquatic eukaryotic plankton diversity (Newfoundland Shelf)

| PRJNA803249 | ENA

Project description:Eukaryotic Plankton Raw sequence reads

| PRJNA498163 | ENA

eukaryotic plankton environmental sample

Project description:eukaryotic plankton environmental sample overview

| PRJNA492569 | ENA