Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Mixed culture

ABSTRACT: Transcriptome sequencing of a mock community (E. coli MG1655, Rhodobacter sphaeroides 2.4.1, and Prochlorococcus marinus MED4)

PROVIDER: PRJNA85559 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR441593_1.fastq.gz	Fastqsanger.gz
	SRR441593_2.fastq.gz	Fastqsanger.gz
	SRR441594.fastq.gz	Fastqsanger.gz
	SRR441595_1.fastq.gz	Fastqsanger.gz
	SRR441595_2.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 470

Similar Datasets

PpsR regulon in Rhodobacter sphaeroides

Project description:mRNA levels were measured in Rhodobacter sphaeroides 2.4.1 at 20% O2 and 0.5% O2, Rhodobacter sphaeroides 2.4.1 App11 (AppA-null), Rhodobacter sphaeroides 2.4.1 (pPNs) and PpsR mutant PPS2-4. The mRNA samples were prepared from cultures supplied with 20% O2, 1% CO2, and 79% N2, and grown in the dark to an OD of 0.18. The mRNA levels for each strain was measured three times. Keywords: repeat sample

2004-07-03 | GSE1515 | GEO

Transcription profiling time series of cyanobacteria Prochlorococcus marinus subsp. pastoris str. CCMP1986 (MED4) and str. MIT 9313 grown in media with different levels and sources of nitrogen

Project description:Cyanobacteria Prochlorococcus marinus subsp. pastoris str. CCMP1986 (MED4) and Prochlorococcus marinus str. MIT 9313 (MIT9313) are oceanic oxygenic phototrophs, where MED4 is abundant in surface waters (~0-50 meters) and MIT9313 is abundant at depths of ~100 meters. To explore nitrogen-regulated changes in gene expression in these Prochlorococcus ecotypes, log phase cultures of MED4 and MIT9313 were transferred to either nitrogen-replete (800 uM ammonium) or medium lacking supplemental nitrogen. Samples were taken over a time series in order to characterize changes in physiology and gene expression during increasing nitrogen starvation. The two ecotypes' molecular responses to different nitrogen sources were also assessed by comparing gene expression of log phase cultures growing in ammonium vs. urea and cyanate (MED4), and vs. urea and nitrite (MIT9313).

2007-10-11 | E-TABM-91 | biostudies-arrayexpress

RpoHI and RpoHII regulons in Rhodobacter sphaeroides 2.4.1

Project description:This SuperSeries is composed of the following subset Series: GSE39711: RpoHI and RpoHII regulons in Rhodobacter sphaeroides 2.4.1 from chromatin immuno-precipitation GSE39712: RpoHI and RpoHII regulons in Rhodobacter sphaeroides 2.4.1 from gene expression profiling Refer to individual Series

2012-08-02 | E-GEOD-39806 | biostudies-arrayexpress

Effect of varying illumination

Project description:Rhodobacter sphaeroides 2.4.1 illuminated with either lumiline bulbs at 10W/m2 or tungsten bulbs at 100W/m2. Sparged with 95%N/5%CO2. Keywords: other

2003-04-21 | GSE139 | GEO

Transcriptome response to nitrosative stress in Rhodobacter sphaeroides 2.4.1

2012-11-11 | GSE33641 | GEO

Role of a short LOV protein in blue light- and singlet oxygen-dependent gene regulation in Rhodobacter sphaeroides

Project description:The facultatively photosynthetic bacterium Rhodobacter sphaeroides harbors an unusual LOV (light, oxygen, voltage) domain protein, RsLOV. While showing a characteristic photocycle, the protein misses a C - terminal output domain, similar to PpSB2 in Pseudomonas putida. Oxygen tension and light quantity are the two main responsible factors controlling the expression of photosynthesis genes in Rhodobacter sphaeroides. Two photoreceptor proteins are known to be involved in this regulation: the intensively studied AppA protein and the more recently identified cryptochrome-like protein CryB. Here we show by transcriptome and physiological studies that RsLOV is also involved in the regulation of photosynthetic gene expression. Our data further hint to a connection between RsLOV and the carbon hydrate metabolism, chemotaxis, as well as to the cellular response to photooxidative stress. RsLOV does not only affect blue light dependent gene expression but also redox-dependent regulation. This SuperSeries is composed of the following subset Series: GSE33194: R. sphaeroides ?lov vs. R. sphaeroides 2.4.1 (microarobic conditions) GSE33259: R. sphaeroides ?lov vs. R. sphaeroides 2.4.1 (blue light, semiaerobic conditions) GSE33260: R. sphaeroides ?lov vs. R. sphaeroides 2.4.1 (singlet oxygen stress, aerobic conditions)

2011-10-25 | E-GEOD-33261 | biostudies-arrayexpress

Cereibacter sphaeroides 2.4.1 isolate:ATCC BAA-808

Project description:Rhodobacter sphaeroides 2.4.1 transcriptome - 2.4.1_A

| PRJNA582308 | ENA

Cereibacter sphaeroides 2.4.1 isolate:ATCC BAA-808

Project description:Rhodobacter sphaeroides 2.4.1 transcriptome - 2.4.1_B

| PRJNA582309 | ENA

Transcriptome response to nitrosative stress in Rhodobacter sphaeroides 2.4.1

Project description:DNA microarray analysis was employed to investigate the transcriptome response to nitrosative stress in a non-denitrifying facultative photosynthetic bacterium Rhodobacter sphaeroides 2.4.1. We focused on the role played by a nitric oxide-response transcriptional regulator NnrR in the response. The transcriptome profiles of R. sphaeroides 2.4.1 and its nnrR mutant before and after exposure to nitrosating agents S-nitrosoglutathione (GSNO) or sodium nitroprusside (SNP) under semiaerobic conditions were analyzed. R. sphaeroides 2.4.1 and its nnrR mutant were cultivated in glass bottles under semiaerobic growth conditions. When the optical density at 600 nm reached approximately 0.15-0.2, 1 mM GSNO or SNP was added to the medium. RNA was isolated from a 50 ml aliquot of the culture prior to the addition of GSNO or SNP and at 15 min after the addition. The experiment was performed in duplicate independent cultures.

2012-11-11 | E-GEOD-33641 | biostudies-arrayexpress

Project description:Rhodobacter sphaeroides strain 2.4.1 substring H2

| PRJNA392388 | ENA