Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Humboldt_bacterioplankton

ABSTRACT: Bacterioplankton communities in the Humboldt upwelling system of Chile

PROVIDER: PRJEB33344 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR3416580_1.fastq.gz	Fastqsanger.gz
	ERR3416580_2.fastq.gz	Fastqsanger.gz
	ERR3416590_1.fastq.gz	Fastqsanger.gz
	ERR3416590_2.fastq.gz	Fastqsanger.gz
	ERR3416600_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 78

Similar Datasets

Supplementary raw metabolomics files for "Ecological stochasticity and phage induction diversify bacterioplankton communities at the microscale"

Project description:Supplementary raw metabolomics files for "Ecological stochasticity and phage induction diversify bacterioplankton communities at the microscale," Rachel E. Szabo et al.

2021-09-24 | MSV000088151 | MassIVE

Namibia upwelling

Project description:Zonation of bacterioplankton communities along aging upwelled water in the northern Benguela upwelling

| PRJEB8816 | ENA

Microarray-based Analysis of Polyamine Transport and Metabolism in the Model Marine Bacterium Silicibacter pomeroyi

Project description:Polyamines, such as putrescine and spermidine, are aliphatic organic compounds with multiple amino groups. They are found ubiquitously in marine systems. However, compared with the extensive studies on the concentration and fate of other dissolved organic nitrogen compounds in seawater, such as dissolved free amino acids (DFAA), investigations of bacterially-mediated polyamine transformations have been rare. Bioinformatic analysis identified genes encoding polyamine transporters in 74 of 109 marine bacterial genomes surveyed, a surprising frequency for a class of organic nitrogen compounds not generally recognized as an important source of carbon and nitrogen for marine bacterioplankton. The genome sequence of marine model bacterium Silicibacter pomeroyi DSS-3 contains a number of genes putatively involved in polyamine use, including six four-gene ATP-binding cassette transport systems. In the present study, polyamine uptake and metabolism by S. pomeroyi was examined to confirm the role of putative polyamine-related genes, and to investigate how well current gene annotations reflect function. A comparative whole-genome microarray approach (Bürgmann et al., 2007) allowed us to identify key genes for transport and metabolism of spermidine in this bacterium, and specify candidate genes for in situ monitoring of polyamine transformations in marine bacterioplankton communities.

2008-12-31 | GSE13781 | GEO

RNA-Seq data of Thalassiosira hyalina and Nitzschia frigida over a time course of high-light exposure under low and high pCO2

Project description:The diatoms Thalassiosira hyalina and Nitzschia frigida are important members of Arctic pelagic (open-water) and sympagic (ice-associated) microalgal communities. We investigated here the molecular mechanisms these algae apply to cope with abrupt high light exposure (Shift from 20 to 380 µmol photons m-2 s-1, resembling upwelling or ice break-up). Experiments were done under contemporary as well as future pCO2 (400 vs. 1000 µatm) to investigate whether [CO2] or pH modulate the reactions to high light intensities. After proper acclimation to the low-light regime, cells were sampled (= 0 hours), then exposed to the high-light treatment expression patterns were followed over 120h. Transcriptomic data were discussed also in the light of an accompanying physiological dataset from the same experiment (Ane Kvernvik et al. in prep).

2020-03-03 | E-MTAB-6999 | biostudies-arrayexpress

Namibian shelf sediment metatranscriptomes

Project description:Bengeulla upwelling system (Namibia) metaomics datasets

| PRJNA525353 | ENA

Benguela upwelling system subsurface sediments

Project description:Benguela upwelling system subsurface sediments metagenome

| PRJNA1084837 | ENA

Enterococcus faecalis reconfigure the activation of its transcriptional regulatory networks under different copper exposure levels

2013-11-12 | GSE45131 | GEO

Enterococcus faecalis reconfigure the activation of its transcriptional regulatory networks under different copper exposure levels

Project description:The microarrays experiments was performed with the purpose of identify transcriptional networks activated by copper. This experiment correspond the work tituled Enterococcus faecalis reconfigure the activation of its transcriptional regulatory networks under different copper exposure levels (work in preparation).Mauricio Latorrea,b, Jessica Galloway-PeM-CM-1ac,d,e, Jung Hyeo Rhoc,d, Marko Budinichf, Barbara E. Murrayc,d,e, Alejandro Maassb,f, Mauricio GonzM-CM-!leza,b,f*. a INTA, Laboratorio de BioinformM-CM-!tica y ExpresiM-CM-3n GM-CM-)nica, INTA, Universidad de Chile, Santiago, Chile. b Center for Genome Regulation (Fondap 15090007), University of Chile, Santiago, Chile. c Division of Infectious Disease, Department of Medicine, University of Texas Medical School, Houston, Texas, United States of America. d Center for the Study of Emerging and Reemerging Pathogens, University of Texas Medical School, Houston, Texas, United States of America. e Department of Microbiology and Molecular Genetics, University of Texas Medical School, Houston, Texas, United States of America f Mathomics, Center for Mathematical Modeling (UMI2807CNRS), Santiago, Chile. * Corresponding author. Address: El LM-CM--bano 5524, Santiago 11, Chile. Fax: +56 (2) 2214030. A eight chip study (two technical replicates) using total RNA recovered from four separate cultures of: Enterococcus faecalis OG1RF (N medium growth), Enterococcus faecalis OG1RF copM-NM-^T mutant strain (N medium growth), Enterococcus faecalis OG1RF copM-NM-^T mutant low copper treatment (N medium growth + 0.05 mM CuSO4) and Enterococcus faecalis OG1RF copM-NM-^T mutant low copper treatment (N medium growth + 0.5 mM CuSO4). Each chip measures the expression level of 3,114 genome genes from Enterococcus faecalis strain V583 (A7980-00-01).

2013-11-12 | E-GEOD-45131 | biostudies-arrayexpress

GNPS Supplementary raw metabolomics files for

Project description:Supplementary raw metabolomics files for "Ecological stochasticity and phage induction diversify bacterioplankton communities at the microscale," Rachel E. Szabo et al.

| MSV000088151 | GNPS

marine metagenome

Project description:Eastern Tropical North Pacific upwelling zone bacterioplankton SSU rDNA amplicon raw reads

| PRJNA566179 | ENA